Tsukamurella spumae (DSM 44113, NCIMB 13947, CCUG 48751)

Name: Tsukamurella spumae (DSM 44113, NCIMB 13947, CCUG 48751)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17093

Type strain

Strain Designation N1171, N 1171

Culture col. no. DSM 44113 NCIMB 13947 CCUG 48751 N1171 IFM 10523 3 more

NCBI tax ID(s) 44753

Special Collections DSMZ CCUG JCM CIP

Links

Tsukamurella spumae N1171 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from foam on the surface of aeration tanks in an activated-sludge sewage-treatment plant.

Gram-positive rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 50493

DSM 44113,NCIMB 13947,CCUG 48751,JCM 12608,CIP 108213

@ref 20215

Last LPSN update 2025-12-16 09:51:00

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Tsukamurellaceae

Genus Tsukamurella

Species Tsukamurella spumae

Full scientific name Tsukamurella spumae Nam et al. 2003

BacDive ID	Other strains from **Tsukamurella spumae** (4)	Type strain
17094	T. spumae DSM 44114
17095	T. spumae DSM 44115
17096	T. spumae DSM 44116
17097	T. spumae DSM 44117

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	92.2
125438	positive	91.287
123275	positive

Colony morphology

@ref	Incubation period
58314	3 days
123275

Multimedia

@ref:	11408
multimedia content:	DSM_44113-1.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44113-1.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	11408
multimedia content:	DSM_44113-2.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44113-2.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

@ref:	11408
multimedia content:	DSM_44113.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44113.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11408	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
32903	MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum		Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
123275	CIP Medium 57	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
11408	positive	growth	28	mesophilic
32903	positive	growth	30	mesophilic
58314	positive	growth	30	mesophilic
67770	positive	growth	28	mesophilic
123275	positive	growth	15-37
123275	negative	growth	10
123275	negative	growth	41
123275	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
58314	aerobe
123275	obligate aerobe
125439	obligate aerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123275	NaCl	positive	growth	0-2 %
123275	NaCl		growth	4 %
123275	NaCl		growth	6 %
123275	NaCl		growth	8 %
123275	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-9

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
123275	16947 ChEBI	citrate	-	carbon source
123275	4853 ChEBI	esculin	-	hydrolysis
123275	606565 ChEBI	hippurate	-	hydrolysis
123275	17632 ChEBI	nitrate	-	reduction
123275	17632 ChEBI	nitrate	-	respiration
123275	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is antibiotic	Is sensitive	Is resistant
123275	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123275	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
123275	15688 ChEBI	acetoin	-
123275	17234 ChEBI	glucose

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
123275	alcohol dehydrogenase	-	1.1.1.1
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
123275	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
123275	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123275	caseinase	-	3.4.21.50
123275	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
123275	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
123275	gamma-glutamyltransferase	+	2.3.2.2
123275	gelatinase	-
123275	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
123275	lipase	-
68382	lipase (C 14)	+		from API zym
123275	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
123275	ornithine decarboxylase	-	4.1.1.17
123275	oxidase	-
123275	phenylalanine ammonia-lyase	-	4.3.1.24
123275	protease	-
68382	trypsin	-	3.4.21.4	from API zym
123275	tryptophan deaminase	-
123275	tween esterase	-
123275	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

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
123275	-	+	+	+	+	+	-	-	-	-	+	+	-	-	-	+	-	-	+	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
123275	not determinedn.d.	+	+	+	+	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	+	-	-	-	-	-	+	+	+	+	+	-	-	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	+	-	+	+	+	-	+	-	-	-	-	+	-	+	+	-	+	-	-	-	+	+	-	-	-	-	-	+	-	+	+	+	+	+	+	+	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Built environment	#Container (Reservoir)
#Engineered	#Waste	#Activated sludge
#Engineered	#Waste	#Water treatment plant
#Environmental	#Aquatic	#Foam

Isolation

@ref	Sample type	Continent
11408	foam on the surface of aeration tanks in an activated-sludge sewage-treatment plant	Europe
58314	Sludge,foam on the surface of aeration tanks	Europe
67770	Activated sludge foam	Europe
123275	Environment, Foam on the surface of aeration tanks, activated-sludge	Europe

Taxonmaps

69479

Global distribution of 16S sequence Z37150 (>99% sequence identity) for Tsukamurella from Microbeatlas

Aquatic Samples	2978
Soil Samples	3431
Animal Samples	5160
Plant Samples	790
Total Samples	12359

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
11408	yes, in single cases	1	Risk group (German classification) According to TRBA 466
123275		1	Risk group (French 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	ASM1239601v1 assembly for Tsukamurella spumae DSM 44113	contig	GCA_012396015	44753.4	2995493401	44753	63.92
124043	ASM3952787v1 assembly for Tsukamurella spumae JCM 12608	scaffold	GCA_039527875			44753	36.36

Genome browser: GCA_012396015

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Tsukamurella spumae strain DSM 44113 16S ribosomal RNA gene, partial sequence	KF410367	1366	44753
11408	T.spumae gene for 16S ribosomal RNA	Z37150	1474	44753
124043	Tsukamurella spumae strain JCM 12608 16S ribosomal RNA gene, partial sequence.	KX924568	1221	44753

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Tsukamurella spumae DSM 44113
NCBI: GCA_012396015

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	60.90	no
125439	motility	BacteriaNetⓘ	no	72.40	no
125439	gram_stain	BacteriaNetⓘ	positive	92.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Tsukamurella spumae strain DSM 44113
PATRIC: 44753.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.29	no
125438	anaerobic	anaerobicⓘ	no	98.20	yes
125438	spore-forming	spore-formingⓘ	no	55.08	no
125438	aerobic	aerobicⓘ	yes	87.64	yes
125438	thermophilic	thermophileⓘ	no	95.50	no
125438	flagellated	motile2+ⓘ	no	89.60	no

Literature

Title	Authors	Journal	DOI	Year
Surfactants tailored by the class Actinobacteria.	Kugler JH, Le Roes-Hill M, Syldatk C, Hausmann R.	Front Microbiol	10.3389/fmicb.2015.00212	2015
Tsukamurella spumae sp. nov., a novel actinomycete associated with foaming in activated sludge plants.	Nam SW, Chun J, Kim S, Kim W, Zakrzewska-Czerwinska J, Goodfellow M	Syst Appl Microbiol	10.1078/072320203322497392	2003

References

#11408	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44113
#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 )
#32903	; Curators of the CIP;
#58314	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 48751
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#123275	Collection of Institut Pasteur ; Curators of the CIP; CIP 108213
#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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Tsukamurella spumae (DSM 44113, NCIMB 13947, CCUG 48751)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_012396015

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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