Mycobacterium setense (DSM 45070, CIP 109395, CCUG 55975)

Name: Mycobacterium setense (DSM 45070, CIP 109395, CCUG 55975)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8553

Type strain

Strain Designation ABO-M06, MBS-1, AB0-M06

Culture col. no. DSM 45070 CIP 109395 CCUG 55975 CIP 139395 ABO-M06 3 more

NCBI tax ID(s) 431269

Special Collections DSMZ CCUG JCM CIP Wink compendium Literature strains

History DSMZ <- B. Lamy; MBS-1 JCM <-- CIP 109395 <-- B. Lamy ABO-M06. CIP <- 2006, B. Lamy, Bassin de Thau Hosp., Sète, France: strain AB0-M06

Links

Mycobacterium setense ABO-M06 is an aerobe, Gram-positive, rod-shaped bacterium that was isolated from chronic cutaneous abcess associated with osteitis.

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

Name and taxonomic classification

SI-ID 323982

CIP 109395,DSM 45070,JCM 15660,CCUG 55975T

@ref 20215

Last LPSN update 2026-05-29 08:26:53

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium setense

Full scientific name Mycobacterium setense Lamy et al. 2008

Synonyms (1)

Mycolicibacterium setense

BacDive ID	Other strains from **Mycobacterium setense** (1)	Type strain
154980	M. setense CCUG 55926

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
32264	positive	rod-shaped
122574	positive	rod-shaped
125438			90.5
125438	positive		91.316

Colony morphology

@ref	Colony color	Incubation period	Medium used
19908	Zinc yellow	10-14 days	ISP 2
19908	Zinc yellow	10-14 days	ISP 3
19908	Zinc yellow	10-14 days	ISP 4
19908	Zinc yellow	10-14 days	ISP 5
19908	Zinc yellow	10-14 days	ISP 6
19908	Zinc yellow	10-14 days	ISP 7
60811		3 days

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19908		ISP 2
19908		ISP 3
19908		ISP 4
19908		ISP 5
19908		ISP 6
19908		ISP 7

Pigmentation

32264

Productionno

Multimedia

@ref:	12313
multimedia content:	DSM_45070.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45070.jpg
caption:	Medium 645 37°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12313	MIDDLEBROOK MEDIUM (DSMZ Medium 645)	Medium recipe at MediaDive	Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water
19908	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
19908	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:
19908	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
19908	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
19908	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
19908	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
122574	CIP Medium 55	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
12313	positive	growth	37
19908	positive	optimum	37
32264	positive	growth	25-37
32264	positive	optimum	30
60811	positive	growth	30
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
60811	aerobe
125439	obligate aerobe	98.41

Spore formation

@ref	Spore formation	Confidence
125439		93.632

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32264	NaCl	positive	growth	5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
32264	17234 ChEBI	glucose	+	carbon source
32264	29864 ChEBI	mannitol	+	carbon source
32264	17632 ChEBI	nitrate	+	reduction
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
32264	alkaline phosphatase	+	3.1.3.1
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	alpha-mannosidase	-	3.2.1.24	from API zym
32264	arylsulfatase	+	3.1.6.1
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
32264	catalase	+	1.11.1.6
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
32264	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
32264	pyrazinamidase	+	3.5.1.B15
68379	pyrazinamidase	+	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	+	3.4.19.3	from API Coryne
68382	trypsin	+	3.4.21.4	from API zym
32264	urease	+	3.5.1.5
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
19908	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
19908	not determinedn.d.	+	+	+	-	+	-	+	+	-	+	+	+	-	+	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Inflammation	-
#Host Body-Site	#Other	#Abscess
#Host Body-Site	#Organ	#Skin, Nail, Hair

Isolation

@ref	Sample type	Host species	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
12313	chronic cutaneous abcess associated with osteitis			Hérault, Sète	France	FRA	Europe
60811	Human soft tissue infection and osteitis	Homo sapiens	2005	Hérault,Sète	France	FRA	Europe
67770	Excised skin and soft tissue specimen			Sète	France	FRA	Europe
122574	Human, Abscess	Homo sapiens		Sète	France	FRA	Europe	2005

Taxonmaps

69479

Global distribution of 16S sequence EU371504 (>99% sequence identity) for Mycolicibacterium from Microbeatlas

Aquatic Samples	64
Soil Samples	45
Animal Samples	50
Plant Samples	337
Total Samples	496

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
12313	2	Risk group (German classification) According to TRBA 466
19908	2	Risk group (German classification) According to TRBA 466
122574	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	ASM80538v1 assembly for Mycolicibacterium setense DSM 45070	contig	GCA_000805385	431269.3	2648501822	431269	75.05
66792	ASM2582154v1 assembly for Mycolicibacterium setense DSM 45070	contig	GCA_025821545	431269.8	8114280679	431269	0

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Mycobacterium setense strain CIP109395 16S ribosomal RNA gene, partial sequence	EU371504	1442		431269
12313	Mycobacterium setense strain ABO-M06 16S ribosomal RNA gene, partial sequence	EF138818	1336		431269

GC content

@ref	GC-content (mol%)	Method
67770	66.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM80538v1 assembly for Mycolicibacterium setense DSM 45070
NCBI: GCA_000805385

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.41	no
125439	gram_stain	BacteriaNetⓘ	positive	63.53	no
125439	motility	BacteriaNetⓘ	yes	41.16	no
125439	spore_formation	BacteriaNetⓘ	no	93.63	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycobacterium setense DSM 45070
PATRIC: 431269.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.32	yes
125438	anaerobic	anaerobicⓘ	no	97.39	yes
125438	spore-forming	spore-formingⓘ	no	62.18	no
125438	aerobic	aerobicⓘ	yes	86.36	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	90.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Safety of heat-killed Mycobacterium setense manresensis as a novel food pursuant to Regulation (EU) 2015/2283.	EFSA Panel on Nutrition, Novel Foods and Food Allergens (NDA), Turck D, Castenmiller J, De Henauw S, Hirsch-Ernst KI, Kearney J, Maciuk A, Mangelsdorf I, McArdle HJ, Naska A, Pelaez C, Pentieva K, Siani A, Thies F, Tsabouri S, Vinceti M, Cubadda F, Engel KH, Frenzel T, Heinonen M, Marchelli R, Neuhauser-Berthold M, Poulsen M, Sanz Y, Schlatter JR, van Loveren H, Sun Q, Gelbmann W, Knutsen HK.	EFSA J	10.2903/j.efsa.2019.5824	2019
	Draft Genome Sequence of Mycobacterium setense CSUR47.	Bouam A, Levasseur A, Drancourt M.	Genome Announc	10.1128/genomea.01415-17	2018
	Draft Genome Sequences of Mycobacterium setense Type Strain DSM-45070 and the Nonpathogenic Strain Manresensis, Isolated from the Bank of the Cardener River in Manresa, Catalonia, Spain.	Rech G, Vilaplana C, Velasco J, Pluvinet R, Santin S, Prat C, Julian E, Alcaide F, Comas I, Sumoy L, Cardona PJ.	Genome Announc	10.1128/genomea.01485-14	2015
Phylogeny	Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera.	Gupta RS, Lo B, Son J.	Front Microbiol	10.3389/fmicb.2018.00067	2018
Phylogeny	Microbiological features and clinical relevance of new species of the genus Mycobacterium.	Tortoli E.	Clin Microbiol Rev	10.1128/cmr.00035-14	2014
Phylogeny	Mycobacterium setense sp. nov., a Mycobacterium fortuitum-group organism isolated from a patient with soft tissue infection and osteitis.	Lamy B, Marchandin H, Hamitouche K, Laurent F	Int J Syst Evol Microbiol	10.1099/ijs.0.65222-0	2008

References

#12313	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45070
#19908	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 )
#28505	IJSEM 486 2008 ( DOI 10.1099/ijs.0.65222-0 , PubMed 18218954 )
#32264	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 #28505
#60811	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55975
#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;
#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 .
#122574	Collection of Institut Pasteur ; Curators of the CIP; CIP 109395
#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

Mycobacterium setense (DSM 45070, CIP 109395, CCUG 55975)

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

Halophily

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_000805385

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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