Streptomyces lomondensis (DSM 41428, ATCC 25299, JCM 4866)

Name: Streptomyces lomondensis (DSM 41428, ATCC 25299, JCM 4866)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16180

Type strain

Culture col. no. DSM 41428 ATCC 25299 JCM 4866 KCC S-0866 NCIB 10094 6 more

NCBI tax ID(s) 68229

Special Collections DSMZ JCM Wink compendium

History DSMZ <- NRRL <- ATCC <- A. Dietz, UC 5022 JCM <-- KCC S-0866 <-- Upjohn Co., USA; UC 5022.

Links

Streptomyces lomondensis DSM 41428 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 265482

ATCC 25299,NCIB 10094,NRRL 3252,DSM 41428,JCM 4866,CCRC 12208,IFO 15426,NCIMB 10094,NBRC 15426,BCRC 12208,CGMCC 4.1746

@ref 20215

Last LPSN update 2026-05-29 08:28:43

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces lomondensis

Full scientific name Streptomyces lomondensis Johnson and Dietz 1969 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125439		93.661
125439		98.779	positive

Colony morphology

@ref	Colony color	Incubation period	Medium used
19497	Orange	10-14 days	ISP 2
19497	Red	10-14 days	ISP 3
19497	Brown	10-14 days	ISP 4
19497	Brown	10-14 days	ISP 5
19497	Brown	10-14 days	ISP 6
19497	Black	10-14 days	ISP 7

Multicellular morphology

@ref	Complex name	Complex color	Medium name
19497	Aerial Mycelium	Blue grey (7031)	ISP 2
19497	Aerial Mycelium	Blue grey (7031)	ISP 3
19497	Aerial Mycelium	Blue grey (7031)	ISP 4
19497	Aerial Mycelium	Blue grey (7031)	ISP 5
19497	Aerial Mycelium	Blue grey (7031)	ISP 7
19497			ISP 6

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
10292	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
19497	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
19497	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:
19497	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
19497	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
19497	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
19497	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
10292	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)
10292	positive	growth	28
19497	positive	optimum	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	90.125
125439	obligate aerobe	98.734

Spore formation

@ref	Spore description	Type of spore	Confidence
19497	Formation of spore chains (retinaculiapetri)(hook), spore surface warty	spore
125438			92.71
125439			91.445

Compound production

@ref	Compound
10292	lomofungin
19497	Phenazine antibiotic

Halophily

@ref	Salt	Growth	Tested relation	Concentration
19497	NaCl	positive	maximum	5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
19497	22599 ChEBI	arabinose	+
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
19497	62968 ChEBI	cellulose	-
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
19497	28757 ChEBI	fructose	-
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
19497	17234 ChEBI	glucose	+
68368	25094 ChEBI	lysine	-	degradation	from API 20E
19497	29864 ChEBI	mannitol	+
19497	17268 ChEBI	myo-inositol	+
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
19497	16634 ChEBI	raffinose	+
19497	26546 ChEBI	rhamnose	+
19497	17992 ChEBI	sucrose	+
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
19497	18222 ChEBI	xylose	-

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
67770		lomofungin

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
19497	+	+	-	-	+	-	+	+	-	+	+	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

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
10292	soil
67770	Soil

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
10292	1	Risk group (German classification) According to TRBA 466
19497	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	ASM1465103v1 assembly for Streptomyces lomondensis JCM 4866	scaffold	GCA_014651035	68229.3	8109679610	68229	67.48
66792	ASM2144010v1 assembly for Streptomyces lomondensis DSM 41428	contig	GCA_021440105	68229.5		68229	65.64

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces lomondensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4866	D44415	121	68229
20218	Streptomyces lomondensis gene for 16S rRNA, partial sequence, strain: NBRC 15426	AB184673	1440	68229
67770	Streptomyces lomondensis 16S rRNA gene, type strain LMG 20088	AJ781352	1467	68229
124043	Streptomyces lomondensis strain JCM 4866 16S ribosomal RNA gene, partial sequence.	MT760634	1350	68229

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1465103v1 assembly for Streptomyces lomondensis JCM 4866
BV-BRC: 68229.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.73	no
125439	gram_stain	BacteriaNetⓘ	positive	98.78	no
125439	motility	BacteriaNetⓘ	no	93.66	no
125439	spore_formation	BacteriaNetⓘ	yes	91.45	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces lomondensis JCM 4866
NCBI: GCA_014651035.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.22	no
125438	anaerobic	anaerobicⓘ	no	92.06	no
125438	aerobic	aerobicⓘ	yes	90.13	no
125438	spore-forming	spore-formingⓘ	yes	92.71	yes
125438	thermophilic	thermophileⓘ	no	94.00	no
125438	flagellated	motile2+ⓘ	no	88.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Lomofungin, a new antibiotic produced by Streptomyces lomondensis sp. n.	Johnson LE, Dietz A.	Appl Microbiol	10.1128/am.17.5.755-759.1969	1969
Phylogeny	Streptomyces deserti sp. nov., isolated from hyper-arid Atacama Desert soil.	Santhanam R, Okoro CK, Rong X, Huang Y, Bull AT, Andrews BA, Asenjo JA, Weon HY, Goodfellow M	Antonie Van Leeuwenhoek	10.1007/s10482-011-9672-0	2011

References

#10292	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 41428
#19497	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 lomondensis (DSM 41428, ATCC 25299, JCM 4866)

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

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014651035

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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