Micromonospora tulbaghiae (DSM 45142, JCM 18297, NRRL B-24576)

Name: Micromonospora tulbaghiae (DSM 45142, JCM 18297, NRRL B-24576)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8008

Type strain

Strain Designation TVU1

Culture col. no. DSM 45142 JCM 18297 NRRL B-24576 TVU1

NCBI tax ID(s) 479978

Special Collections DSMZ JCM Wink compendium Literature strains

History <- P. R. Meyers, Univ. Cape Town, South Africa; TVU1 <- B. M. Kirby DSM 45142 <-- P. R. Meyers TVU1 <-- B. M. Kirby.

Links

Micromonospora tulbaghiae TVU1 is a spore-forming, Gram-positive bacterium that was isolated from leaves of wild garlic, Tulbaghia violacea.

spore-forming Gram-positive genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 399689

JCM 18297,DSM 45142

@ref 20215

Last LPSN update 2026-02-09 11:19:36

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micromonosporales

Family Micromonosporaceae

Genus Micromonospora

Species Micromonospora tulbaghiae

Full scientific name Micromonospora tulbaghiae Kirby and Meyers 2010

BacDive ID	Other strains from **Micromonospora tulbaghiae** (7)	Type strain
8009	M. tulbaghiae DSM 45489, UTMC 561
156264	M. tulbaghiae CCUG 60921
160660	M. tulbaghiae 7/2/0.1/2, DSM 43713
160661	M. tulbaghiae 07-01839, DSM 45187
161897	M. tulbaghiae JCM 17007
161899	M. tulbaghiae JCM 17009
176917	M. tulbaghiae 6/2/0.25/8, DSM 43712

Morphology

Cell morphology

@ref	Gram stain	Confidence
29444	positive
125438	positive	92.823
125439	positive	99.9

Colony morphology

@ref	Colony color	Incubation period	Medium used
21386	Olive brown (8008)	10-14 days	ISP 2
21386	Orange brown (8023)	10-14 days	ISP 3
21386	Yellow orange (2000)	10-14 days	ISP 4
21386	Yellow Orange (2000)	10-14 days	ISP 5
21386	Ochre brown (8001)	10-14 days	ISP 7
21386	Daffodil yellow (1007)	10-14 days	Suter with tyrosine
21386	Saffran yellow (1017)	10-14 days	Suter without tyrosine

Multicellular morphology

@ref	Forms multicellular complex	Medium name
21386		ISP 2
21386		ISP 3
21386		ISP 4
21386		ISP 5
21386		ISP 7
21386		Suter with tyrosine
21386		Suter without tyrosine

Pigmentation

29444

Productionno

Multimedia

@ref:	12386
multimedia content:	DSM_45142.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45142.jpg
caption:	Medium 554 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12386	N-Z-AMINE-MEDIUM (DSMZ Medium 554)	Medium recipe at MediaDive	Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
21386	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
21386	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:
21386	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
21386	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
21386	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
21386	Suter with tyrosine		Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes
21386	Suter without tyrosine		Name: Synthetically suter medium (5337) with and without tyrosine - see Kutzner,H.J., R. M. Kroppensted and F. Korn-Wendisch. (1986) Composition: Glycerol 15.0 g/l Tyrosine 1.0 (optional, see preparation comment) L-arginine 5.0 g/l L-glutamic acid 5.0 g/l L-methionine 0.3 g/l L-isoleucine 0.3 g/l K2HPO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Agar 20.0 g/l Trace element solution (5341) 1.0 ml Composition of Trace element solution (5341): CuSO4 x 5 H2O 10.0 g/l CaCl2 x 2 H2O 10.0 g/l FeSO4 x 7 H2O 10.0 g/l ZnSO4 x 7 H2O 10.0 g/l MnSO4 x 7 H2O 40.0 g/l Preparation: Control medium is prepared without tyrosine Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigment Organisms: All Actinomycetes
12386	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
12386	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

Culture temp

@ref	Growth	Type	Temperature (°C)
12386	positive	growth	28
29444	positive	growth	04-37
67770	positive	growth	28

Culture pH

@ref	Ability	Type	PH	PH range
29444	positive	growth	07-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.8

Spore formation

@ref	Spore formation	Confidence
29444
125438		92.814

Halophily

@ref	Salt	Growth	Tested relation	Concentration
21386	NaCl	positive	maximum	5 %
29444	NaCl	positive	growth	5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
21386	22599 ChEBI	arabinose	+
21386	62968 ChEBI	cellulose	+
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
21386	28757 ChEBI	fructose	+
29444	28757 ChEBI	fructose	+	carbon source
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
21386	17234 ChEBI	glucose	+
29444	17234 ChEBI	glucose	+	carbon source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
29444	29864 ChEBI	mannitol	+	carbon source
21386	37684 ChEBI	mannose	+
21386	17268 ChEBI	myo-inositol	+
29444	17268 ChEBI	myo-inositol	+	carbon source
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
21386	16634 ChEBI	raffinose	+
21386	26546 ChEBI	rhamnose	+
29444	26546 ChEBI	rhamnose	+	carbon source
29444	33942 ChEBI	ribose	+	carbon source
21386	17992 ChEBI	sucrose	+
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
21386	18222 ChEBI	xylose	+

Metabolite production

@ref	Chebi-ID	Metabolite	Production
29444	16136 ChEBI	hydrogen sulfide

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
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
68379	alpha-glucosidase	-	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
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
29444	gelatinase	+
68379	gelatinase	+		from API Coryne
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	+	3.4.21.4	from API zym
68379	urease	-	3.5.1.5	from API Coryne
68382	valine arylamidase	+		from API zym

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
21386	-	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
21386	not determinedn.d.	-	+	+	-	+	+	+	+	+	-	-	+	+	-	+	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
12386	leaves of wild garlic, Tulbaghia violacea	Tulbaghia violacea	Cape Town, Wellington	South Africa	ZAF	Africa
67770	Leaves of wild garlic, Tulbaghia violacea	Tulbaghia violacea

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
12386	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
67770	IMG-taxon 2622736612 annotated assembly for Micromonospora tulbaghiae DSM 45142	scaffold	GCA_900091605	479978.4	2622736612	479978	74.24

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
12386	Micromonospora tulbaghiae strain TVU1 16S ribosomal RNA gene, partial sequence	EU196562	1435		479978

GC content

@ref	GC-content (mol%)	Method
67770	72.95	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Micromonospora tulbaghiae DSM 45142
NCBI: GCA_900091605

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	88.60	no
125439	motility	BacteriaNetⓘ	no	83.90	no
125439	gram_stain	BacteriaNetⓘ	positive	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Micromonospora tulbaghiae strain DSM 45142
PATRIC: 479978.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	92.82	yes
125438	anaerobic	anaerobicⓘ	no	97.40	no
125438	spore-forming	spore-formingⓘ	yes	92.81	no
125438	aerobic	aerobicⓘ	yes	87.60	no
125438	thermophilic	thermophileⓘ	no	95.50	yes
125438	flagellated	motile2+ⓘ	no	89.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	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
Genetics	Whole genomes of deep-sea sponge-associated bacteria exhibit high novel natural product potential.	Hesketh-Best PJ, January GG, Koch MJ, Warburton PJ, Howell KL, Upton M.	FEMS Microbes	10.1093/femsmc/xtad005	2023
	Biological Control of Mango Dieback Disease Caused by Lasiodiplodia theobromae Using Streptomycete and Non-streptomycete Actinobacteria in the United Arab Emirates.	Kamil FH, Saeed EE, El-Tarabily KA, AbuQamar SF.	Front Microbiol	10.3389/fmicb.2018.00829	2018
	Micromonospora cathayae sp. nov., isolated from the rhizosphere soil of Cathaya argyrophylla.	Long PL, Fu L, Xiao Y, Gao J.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006332	2024
Phylogeny	Micromonospora fluminis sp. nov., isolated from mountain river sediment.	Camacho Pozo MI, Wieme AD, Rodriguez Perez S, Llaurado Maury G, Peeters C, Snauwaert C, Lescaylle Veranes Y, Pena Zamora L, Schumann P, Vandamme PA	Int J Syst Evol Microbiol	10.1099/ijsem.0.004554	2020
Metabolism	Actinoplanes deserti sp. nov., isolated from a desert soil sample.	Habib N, Khan IU, Chu X, Xiao M, Li S, Fang BZ, Zhi XY, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-018-1121-x	2018
Phylogeny	Micromonospora tulbaghiae sp. nov., isolated from the leaves of wild garlic, Tulbaghia violacea.	Kirby BM, Meyers PR	Int J Syst Evol Microbiol	10.1099/ijs.0.013243-0	2009

References

#12386	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45142
#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 )
#21386	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#25850	IJSEM 1328 2010 ( DOI 10.1099/ijs.0.013243-0 , PubMed 19667372 )
#29444	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25850
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#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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Micromonospora tulbaghiae (DSM 45142, JCM 18297, NRRL B-24576)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900091605

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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