Saccharothrix coeruleofusca (DSM 43679, ATCC 35108, INA 1335)

Name: Saccharothrix coeruleofusca (DSM 43679, ATCC 35108, INA 1335)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13475

Type strain

Culture col. no. DSM 43679 ATCC 35108 INA 1335 VKM Ac-855 NRRL B-16115 11 more

NCBI tax ID(s) 33919

Special Collections DSMZ JCM KCTC Wink compendium JMRC

History DSMZ <- N.S. Agre, INA JCM <-- KCC A-0313 <-- IMET 9602 <-- INA 1335.

Links

Saccharothrix coeruleofusca DSM 43679 is a spore-forming bacterium that builds an aerial mycelium and was isolated from soil.

spore-forming genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 40874

ATCC 35108,DSM 43679,JCM 3313,CCRC 13313,IFO 14520,IMET 9602,NRRL B-16115,VKM Ac-855,AS 4.1356,KCTC 9389,NBRC 14520,BCRC 13313,CGMCC 4.1356

@ref 20215

Last LPSN update 2026-05-29 08:28:03

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Saccharothrix

Species Saccharothrix coeruleofusca

Full scientific name Saccharothrix coeruleofusca (Preobrazhenskaya and Sveshnikova 1974) Grund and Kroppenstedt 1990

Synonyms (2)

Actinomadura coeruleofusca
Nocardiopsis coeruleofusca

Morphology

Cell morphology

@ref	Gram stain	Confidence	Motility
125439	positive	99.253
125439		92.525

Colony morphology

@ref	Colony color	Incubation period	Medium used
19581	Deep orange	10-14 days	ISP 2
19581	Deep orange	10-14 days	ISP 3
19581	Deep orange	10-14 days	ISP 4
19581	Deep orange	10-14 days	ISP 5
19581	Dahlia yellow	10-14 days	ISP 6
19581	Dahlia yellow	10-14 days	ISP 7

Multicellular morphology

@ref	Complex name	Complex color	Medium name
19581	Aerial Mycelium	Silver gray	ISP 2
19581	Aerial Mycelium	Silver gray	ISP 3
19581	Aerial Mycelium	White	ISP 4
19581	Aerial Mycelium	White	ISP 5
19581			ISP 6
19581	Aerial Mycelium	White	ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11242	GYM+S MEDIUM (DSMZ Medium 214)	Medium recipe at MediaDive	Name: GYM+S MEDIUM (DSMZ Medium 214) Composition: Starch 20.0 g/l Agar 12.0 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
19581	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
19581	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:
19581	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
19581	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
19581	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
19581	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

Culture temp

@ref	Growth	Type	Temperature (°C)
11242	positive	growth	28
19581	positive	optimum	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.807

Spore formation

@ref	Spore description	Type of spore	Spore formation
19581	Formation of spore chains (rectiflixibilis), spore surface smooth	spore

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19581	NaCl	positive	maximum	2.5 %

Observation

67770

Observationquinones: MK-9(H₄)

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
68382	acid phosphatase	+	3.1.3.2	from API zym
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-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
68368	beta-galactosidase	+	3.2.1.23	from API 20E
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	-		from API zym
68368	gelatinase	+		from API 20E
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
68382	trypsin	+	3.4.21.4	from API zym
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	+	3.5.1.5	from API 20E
68382	valine arylamidase	-		from API zym

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
19581	+	+	+	+	+	-	+	-	-	+	+	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

@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
19581	not determinedn.d.	+	-	-	-	-	-	-	+	+	+	+	-	-	-	+	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
11242	soil
67770	Soil

Taxonmaps

69479

Global distribution of 16S sequence AF114805 (>99% sequence identity) for Saccharothrix from Microbeatlas

Aquatic Samples	7
Soil Samples	59
Animal Samples	4
Plant Samples	2
Total Samples	72

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11242	1	Risk group (German classification) According to TRBA 466
19581	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	ASM1787632v1 assembly for Saccharothrix coeruleofusca DSM 43679	contig	GCA_017876325	33919.4	2918321734	33919	77.78
66792	ASM1464851v1 assembly for Saccharothrix coeruleofusca JCM 3313	scaffold	GCA_014648515	33919.3	8066710421	33919	16.64

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	S.coeruleofusca (DSM 43679) 16S ribosomal RNA (partial)	X76963	1458	33919
20218	Saccharothrix coeruleofusca strain NRRL B-16115T 16S ribosomal RNA gene, partial sequence	AF114805	1512	33919
124043	Saccharothrix coeruleofusca strain JCM 3313 16S ribosomal RNA gene, partial sequence.	MT760445	1325	33919

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1787632v1 assembly for Saccharothrix coeruleofusca DSM 43679
BV-BRC: 33919.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.81	no
125439	gram_stain	BacteriaNetⓘ	positive	99.25	no
125439	spore_formation	BacteriaNetⓘ	yes	81.73	no
125439	motility	BacteriaNetⓘ	no	92.53	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Saccharothrix coeruleofusca JCM 3313
NCBI: GCA_014648515.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.79	no
125438	anaerobic	anaerobicⓘ	no	95.85	no
125438	aerobic	aerobicⓘ	yes	88.35	no
125438	spore-forming	spore-formingⓘ	yes	88.20	yes
125438	thermophilic	thermophileⓘ	no	95.00	yes
125438	flagellated	motile2+ⓘ	no	83.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Improvement of Medicago sativa Crops Productivity by the Co-inoculation of Sinorhizobium meliloti-Actinobacteria Under Salt Stress.	Saidi S, Cherif-Silini H, Chenari Bouket A, Silini A, Eshelli M, Luptakova L, Alenezi FN, Belbahri L.	Curr Microbiol	10.1007/s00284-021-02394-z	2021
Phylogeny	Saccharothrix xinjiangensis sp. nov., a pyrene-degrading actinomycete isolated from Tianchi Lake, Xinjiang, China.	Hu YT, Zhou PJ, Zhou YG, Liu ZH, Liu SJ.	Int J Syst Evol Microbiol	10.1099/ijs.0.63143-0	2004
Phylogeny	Isolation of toxigenic Nocardiopsis strains from indoor environments and description of two new Nocardiopsis Species, N. exhalans sp. nov. and N. umidischolae sp. nov.	Peltola JS, Andersson MA, Kampfer P, Auling G, Kroppenstedt RM, Busse HJ, Salkinoja-Salonen MS, Rainey FA.	Appl Environ Microbiol	10.1128/aem.67.9.4293-4304.2001	2001
Phylogeny	Solihabitans fulvus gen. nov., sp. nov., a member of the family Pseudonocardiaceae isolated from soil.	Jin CZ, Jin L, Liu MJ, Lee JM, Park DJ, Kim CJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.005110	2022

References

#11242	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43679
#19581	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 )
#20216	Curators of the JMRC: Jena Microbial Resource Collection (JMRC):
#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 .
#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 )

Content

About us

Saccharothrix coeruleofusca (DSM 43679, ATCC 35108, INA 1335)

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

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_017876325

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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