Tsukamurella pseudospumae (DSM 44118, CIP 108828, JCM 13375)

Name: Tsukamurella pseudospumae (DSM 44118, CIP 108828, JCM 13375)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17106

Type strain

Strain Designation N1176

Culture col. no. DSM 44118 CIP 108828 JCM 13375 NCIMB 13963 NRRL B-24668 2 more

NCBI tax ID(s) 239498

Special Collections DSMZ JCM CIP Wink compendium Literature strains

History <- M. Goodfellow, N 1176 IFM 10600 <-- DSM 44118 <-- M. Goodfellow N1176.

Links

Tsukamurella pseudospumae N1176 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from foam on the surface of aeration tanks in an activated-sludge-treatment plant.

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

Name and taxonomic classification

SI-ID 50498

DSM 44118,NCIMB 13963,JCM 13375,CIP 108828

@ref 20215

Last LPSN update 2026-02-09 11:22:08

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Tsukamurellaceae

Genus Tsukamurella

Species Tsukamurella pseudospumae

Full scientific name Tsukamurella pseudospumae Nam et al. 2004

Synonyms (1)

Tsukamurella sunchonensis

BacDive ID	Other strains from **Tsukamurella pseudospumae** (1)	Type strain
17108	T. pseudospumae SCNU5, DSM 45335, KCTC 9827, NRRL B-24668, ...

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
30099	positive	rod-shaped
125438			90.1
125439	positive		98.4

Colony morphology

@ref	Colony color	Incubation period	Medium used
19629	Red orange	10-14 days	ISP 2
19629	Yellow orange	10-14 days	ISP 3
19629	Yellow orange	10-14 days	ISP 4
19629	Yellow orange	10-14 days	ISP 5
19629	Yellow orange	10-14 days	ISP 6
19629	Yellow orange	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19629		ISP 2
19629		ISP 3
19629		ISP 4
19629		ISP 5
19629		ISP 6
19629		ISP 7

Pigmentation

30099

Productionyes

Multimedia

@ref:	11413
multimedia content:	DSM_44118.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44118.jpg
caption:	Medium 535 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11413	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
11413	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
11413	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
19629	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
19629	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:
19629	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
19629	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
19629	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
19629	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)	Range
11413	positive	growth	28	mesophilic
19629	positive	optimum	28	mesophilic
30099	positive	growth	10-37
30099	positive	optimum	23.5	psychrophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30099	aerobe
125439	obligate aerobe	95.7

Spore formation

30099

Spore formationno

Observation

67770

Observationquinones: MK-9

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
19629	22599 ChEBI	arabinose	-
30099	22599 ChEBI	arabinose	+	carbon source
30099	22653 ChEBI	asparagine	+	carbon source
30099	17057 ChEBI	cellobiose	+	carbon source
19629	62968 ChEBI	cellulose	-
30099	16947 ChEBI	citrate	+	carbon source
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
30099	4853 ChEBI	esculin	+	hydrolysis
68379	4853 ChEBI	esculin	+	hydrolysis	from API Coryne
19629	28757 ChEBI	fructose	+
30099	28757 ChEBI	fructose	+	carbon source
30099	28260 ChEBI	galactose	+	carbon source
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
19629	17234 ChEBI	glucose	+
30099	17234 ChEBI	glucose	+	carbon source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
30099	18403 ChEBI	L-arabitol	+	carbon source
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
30099	17306 ChEBI	maltose	+	carbon source
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
19629	29864 ChEBI	mannitol	-
30099	37684 ChEBI	mannose	+	carbon source
19629	17268 ChEBI	myo-inositol	-
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
30099	50048 ChEBI	phenylethylamine	+	carbon source
30099	15361 ChEBI	pyruvate	+	carbon source
19629	16634 ChEBI	raffinose	-
19629	26546 ChEBI	rhamnose	-
30099	26546 ChEBI	rhamnose	+	carbon source
30099	33942 ChEBI	ribose	+	carbon source
30099	17822 ChEBI	serine	+	carbon source
19629	17992 ChEBI	sucrose	+
30099	17992 ChEBI	sucrose	+	carbon source
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
30099	27082 ChEBI	trehalose	+	carbon source
30099	53426 ChEBI	tween 80	+	carbon source
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
19629	18222 ChEBI	xylose	-

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
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
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	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
68379	beta-glucosidase	+	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
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

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
19629	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.
11413	+	-	-	+	-	-	+	-	+	+	-	-	-	-	-	-	-	-	-	-	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
19629	not determinedn.d.	+	+	+	-	+	+	+	-	-	+	-	-	-	-	+	+	-	+	-
11413	-	+	+/-	+/-	-	+	-	-	-	-	+	-	-	-	-	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Activated sludge
#Engineered	#Waste	#Water treatment plant
#Environmental	#Aquatic	#Foam

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
11413	foam on the surface of aeration tanks in an activated-sludge-treatment plant			Europe
67770	Activated sludge foam from Stoke Bardolph Water Reclamation Works near Nottingham	United Kingdom	GBR	Europe

Taxonmaps

69479

Global distribution of 16S sequence AY238513 (>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	Biosafety level	Biosafety level comment
11413	1	Risk group (German classification) According to TRBA 466
19629	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	ASM157520v1 assembly for Tsukamurella pseudospumae JCM 13375	contig	GCA_001575205	105579.6	2667527863	239498	64.91

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
11413	Tsukamurella pseudospumae strain N1176 16S ribosomal RNA gene, complete sequence	AY238513	1510		239498
124043	Tsukamurella pseudospumae strain JCM 13375 16S ribosomal RNA gene, partial sequence.	KX924567	1221		239498

GC content

@ref	GC-content (mol%)	Method
11413	70.5	sequence analysis
67770	70.6	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Tsukamurella pseudospumae JCM 13375
NCBI: GCA_001575205

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	62.80	no
125439	motility	BacteriaNetⓘ	no	76.50	no
125439	gram_stain	BacteriaNetⓘ	positive	98.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Tsukamurella sunchonensis strain JCM 13375
PATRIC: 105579.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	88.73	yes
125438	anaerobic	anaerobicⓘ	no	98.09	yes
125438	spore-forming	spore-formingⓘ	no	63.16	yes
125438	aerobic	aerobicⓘ	yes	88.82	yes
125438	thermophilic	thermophileⓘ	no	95.50	yes
125438	flagellated	motile2+ⓘ	no	90.10	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
Genetics	Phylogenomic Analyses and Reclassification of Species within the Genus Tsukamurella: Insights to Species Definition in the Post-genomic Era.	Teng JL, Tang Y, Huang Y, Guo FB, Wei W, Chen JH, Wong SS, Lau SK, Woo PC.	Front Microbiol	10.3389/fmicb.2016.01137	2016
Phylogeny	Tsukamurella hongkongensis sp. nov. and Tsukamurella sinensis sp. nov., isolated from patients with keratitis, catheter-related bacteraemia and conjunctivitis.	Teng JLL, Tang Y, Wong SSY, Ngan AHY, Huang Y, Tsang CC, Choi GKY, Lau SKP, Woo PCY	Int J Syst Evol Microbiol	10.1099/ijsem.0.000733	2015
Phylogeny	Tsukamurella pseudospumae sp. nov., a novel actinomycete isolated from activated sludge foam.	Nam SW, Kim W, Chun J, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.02939-0	2004

References

#11413	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44118
#19629	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 )
#26455	IJSEM 1209 2004 ( DOI 10.1099/ijs.0.02939-0 , PubMed 15280293 )
#30099	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 #26455
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68379	Automatically annotated from API Coryne .
#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 )

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Tsukamurella pseudospumae (DSM 44118, CIP 108828, JCM 13375)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001575205

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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