Cutibacterium namnetense (DSM 29427, CCUG 66358, NTS 31307302)

Name: Cutibacterium namnetense (DSM 29427, CCUG 66358, NTS 31307302)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132605

Type strain

Culture col. no. DSM 29427 CCUG 66358 NTS 31307302

NCBI tax ID(s) 1574624

Special Collections DSMZ CCUG Literature strains

History <- S. Corvec, Nantes Univ. Hospital, Bacteriology Unit, France <- P. Bremer

Links

Cutibacterium namnetense DSM 29427 is an anaerobe, Gram-positive, pleomorphic-shaped bacterium that forms circular colonies and was isolated from surgical samples of human bone infection.

Gram-positive pleomorphic-shaped colony-forming anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 401705

LMG 31301,DSM 29427,CCUG 66358

@ref 20215

Last LPSN update 2026-02-09 11:31:45

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Propionibacteriaceae

Genus Cutibacterium

Species Cutibacterium namnetense

Full scientific name Cutibacterium namnetense (Aubin et al. 2016) Nouioui et al. 2018

Synonyms (1)

Propionibacterium namnetense

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
43105	positive	1.5-7 µm	0.7-0.8 µm	pleomorphic-shaped
125438						95

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43105	2 mm	pale cream to orange-salmon	circular	6 days	Schaedler blood agar
63326				2 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
43105	Schaedler blood agar
24394	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)		Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
24394	positive	growth	37
43105	positive	optimum	35
43105	positive	growth	20-42
63326	positive	growth	37

Culture pH

@ref	Ability	Type	PH	PH range
43105	positive	growth	4.0-10.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
43105	anaerobe
43105	aerotolerant
63326	anaerobe

Spore formation

@ref	Spore formation	Confidence
43105
125439		97.6

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43105	NaCl	positive	growth	4 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43105	16651 ChEBI	(S)-lactate	+	respiration
43105	17256 ChEBI	2-deoxyadenosine	+	respiration
43105	16763 ChEBI	2-oxobutanoate	+	respiration
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
43105	15903 ChEBI	beta-d-glucose	+	respiration
43105	17057 ChEBI	cellobiose	+	respiration
43105	15824 ChEBI	D-fructose	+	respiration
43105	12936 ChEBI	D-galactose	+	respiration
43105	17634 ChEBI	D-glucose	+	assimilation
43105	14314 ChEBI	D-glucose 6-phosphate	+	respiration
43105	16899 ChEBI	D-mannitol	-	assimilation
43105	16024 ChEBI	D-mannose	+	respiration
68380	16024 ChEBI	D-mannose	-	fermentation	from API rID32A
43105	16988 ChEBI	D-ribose	+	assimilation
43105	17924 ChEBI	D-sorbitol	+	respiration
43105	23652 ChEBI	dextrin	+	respiration
43105	17113 ChEBI	erythritol	+	respiration
43105	4853 ChEBI	esculin	-	hydrolysis
43105	5291 ChEBI	gelatin	+	hydrolysis
43105	17754 ChEBI	glycerol	+	respiration
43105	21217 ChEBI	L-alaninamide	+	respiration
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
43105	24996 ChEBI	lactate	+	respiration
43105	17716 ChEBI	lactose	-	assimilation
43105	17306 ChEBI	maltose	-	assimilation
43105	61993 ChEBI	maltotriose	+	respiration
43105	17540 ChEBI	methyl beta-D-galactoside	+	respiration
43105	320055 ChEBI	methyl beta-D-glucopyranoside	+	respiration
43105	51850 ChEBI	methyl pyruvate	+	respiration
43105	75146 ChEBI	monomethyl succinate	+	respiration
43105	63154 ChEBI	N-acetyl-beta-D-mannosamine	+	respiration
43105	506227 ChEBI	N-acetylglucosamine	+	respiration
43105	17632 ChEBI	nitrate	+	reduction
68380	17632 ChEBI	nitrate	+	reduction	from API rID32A
43105	18394 ChEBI	palatinose	+	respiration
43105	15361 ChEBI	pyruvate	+	respiration
68380	16634 ChEBI	raffinose	-	fermentation	from API rID32A
43105	143136 ChEBI	succinamate	+	respiration
43105	30031 ChEBI	succinate	+	respiration
43105	17992 ChEBI	sucrose	-	assimilation
43105	17992 ChEBI	sucrose	+	respiration
43105	17748 ChEBI	thymidine	+	respiration
43105	27082 ChEBI	trehalose	+	respiration
68380	27897 ChEBI	tryptophan	+	energy source	from API rID32A
43105	32528 ChEBI	turanose	+	respiration
68380	16199 ChEBI	urea	+	hydrolysis	from API rID32A
43105	16704 ChEBI	uridine	+	respiration

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43105	35581 ChEBI	indole
68380	35581 ChEBI	indole		from API rID32A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	+	from API rID32A

Enzymes

@ref	Value	Activity	Ec
43105	6-phospho-beta-galactosidase	-	3.2.1.85
43105	alanine arylamidase	+	3.4.11.2
68380	alanine arylamidase	+	3.4.11.2	from API rID32A
43105	alkaline phosphatase	-	3.1.3.1
68380	alkaline phosphatase	-	3.1.3.1	from API rID32A
43105	alpha-arabinosidase	-	3.2.1.55
68380	alpha-arabinosidase	-	3.2.1.55	from API rID32A
43105	alpha-fucosidase	-	3.2.1.51
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
43105	alpha-galactosidase	+/-	3.2.1.22
68380	alpha-galactosidase	-	3.2.1.22	from API rID32A
43105	alpha-glucosidase	+	3.2.1.20
43105	arginine arylamidase	-
43105	arginine dihydrolase	-	3.5.3.6
68380	arginine dihydrolase	-	3.5.3.6	from API rID32A
43105	beta-galactosidase	+	3.2.1.23
68380	beta-Galactosidase 6-phosphate	-		from API rID32A
68380	beta-glucosidase	-	3.2.1.21	from API rID32A
43105	beta-glucuronidase	-	3.2.1.31
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
43105	catalase	+	1.11.1.6
43105	glutamate decarboxylase	-	4.1.1.15
68380	glutamate decarboxylase	-	4.1.1.15	from API rID32A
68380	glutamyl-glutamate arylamidase	-		from API rID32A
43105	glycin arylamidase	+
68380	glycin arylamidase	+		from API rID32A
43105	histidine arylamidase	-
68380	histidine arylamidase	-		from API rID32A
68380	L-arginine arylamidase	-		from API rID32A
43105	leucine arylamidase	-	3.4.11.1
68380	leucine arylamidase	-	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	-	3.4.11.1	from API rID32A
43105	N-acetyl-beta-glucosaminidase	+	3.2.1.52
68380	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32A
43105	phenylalanine arylamidase	-
68380	phenylalanine arylamidase	-		from API rID32A
43105	proline-arylamidase	-	3.4.11.5
68380	proline-arylamidase	+	3.4.11.5	from API rID32A
43105	pyrazinamidase	+	3.5.1.B15
43105	pyroglutamic acid arylamidase	-
43105	pyrrolidonyl arylamidase	-	3.4.19.3
68380	pyrrolidonyl arylamidase	-	3.4.19.3	from API rID32A
43105	serine arylamidase	+
68380	serine arylamidase	+		from API rID32A
68380	tryptophan deaminase	+	4.1.99.1	from API rID32A
43105	tyrosine arylamidase	-
68380	tyrosine arylamidase	-		from API rID32A
43105	urease	-	3.5.1.5
68380	urease	+	3.5.1.5	from API rID32A

Fatty acid profile

Metadata FA analysis

@ref

43105

Fatty acid	Percentage
C15:0 iso	57.6
C17:0 iso	14.7
C15:0 anteiso	12

API rID32A

@ref	URE	ADH (Arg)	alpha GAL	beta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha GLU	beta GLU	alpha ARA	beta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	MNE	RAF	GDC	alpha FUC	Reduction of nitrateNIT	IND	PAL	L-arginine arylamidaseArgA	ProA	LGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	PyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
24394	+	-	-	+/-	-	+/-	-	-	-	-	-	-	-	-	+	+	-	-	+	-	-	-	-	-	+	+	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Disease	-
#Host	#Human	-
#Host Body-Site	#Other	#Bone

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
24394	surgical samples of human bone infection		Nantes	France	FRA	Europe
43105	clinical bone samples recovered from a 21-year-old male patient during the surgical treatment of a tibia external fixator infection		Nantes	France	FRA	Europe
63326	Human bone infection,tissue sample	2013-07-25	Nantes	France	FRA	Europe

Taxonmaps

69479

Global distribution of 16S sequence KM507346 (>99% sequence identity) for Cutibacterium namnetense from Microbeatlas

Aquatic Samples	295
Soil Samples	79
Animal Samples	8581
Plant Samples	51
Total Samples	9006

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
24394	yes, in single cases	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM164202v1 assembly for Cutibacterium namnetense NTS 31307302	scaffold	GCA_001642025	1574624.3	2744054862	1574624	73.91

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24394	Cutibacterium namnetense strain NTS 31307302 16S ribosomal RNA gene, partial sequence	KM507346	1424		1574624

GC content

@ref	GC-content (mol%)	Method
43105	59.7
24394	59.7	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Propionibacterium namnetense strain NTS 31307302
PATRIC: 1574624.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.60	no
125439	motility	BacteriaNetⓘ	no	54.10	no
125439	gram_stain	BacteriaNetⓘ	positive	77.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	73.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Propionibacterium namnetense strain NTS 31307302
PATRIC: 1574624.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.98	no
125438	anaerobic	anaerobicⓘ	no	62.31	no
125438	spore-forming	spore-formingⓘ	no	80.18	yes
125438	thermophilic	thermophileⓘ	no	93.45	no
125438	aerobic	aerobicⓘ	no	64.25	no
125438	flagellated	motile2+ⓘ	no	95.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Comprehensive lipidomic analysis of the genus Cutibacterium.	Chudzik A, Bromke MA, Gamian A, Pasciak M.	mSphere	10.1128/msphere.00054-24	2024
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	Clinical and Biological Features of Cutibacterium (Formerly Propionibacterium) avidum, an Underrecognized Microorganism.	Corvec S.	Clin Microbiol Rev	10.1128/cmr.00064-17	2018
	MALDI-TOF mass spectrometry misidentification of Cutibacterium namnetense and Cutibacterium modestum: Implications for multiplex PCR phylotyping of Cutibacterium acnes.	McLaughlin J, Burnham CD, McDowell A.	Anaerobe	10.1016/j.anaerobe.2024.102874	2024
Pathogenicity	Cutibacterium namnetense osteosynthetic cervical spine infections: experience with two cases.	Corvec S, Fayoux E, Tessier E, Guillouzouic A, Moraru C, Lecomte R, Bemer P, Ruffier d'Epenoux L.	Eur J Clin Microbiol Infect Dis	10.1007/s10096-023-04731-5	2024
	Open-Label, Prospective Study of a Prebiotic Gel Cream on Its Efficacy of Mild to Moderate Acne Management and Effects on the Functional Skin Microbiome.	Afzal L, Dulai AS, Khan ZE, Nguyen N, Afzal N, Gunt HB, Sivamani RK.	J Cosmet Dermatol	10.1111/jocd.70138	2025
	Liver abscess caused by Cutibacterium namnetense after transarterial chemoembolization for hepatocellular carcinoma.	Yasutomi E, Ueda Y, Asaji N, Yamamoto A, Yoshida R, Hatazawa Y, Hayashi H, Shiomi Y, Yano Y, Kodama Y.	Clin J Gastroenterol	10.1007/s12328-020-01283-5	2021
Phylogeny	Prosthetic valve infective endocarditis caused by Cutibacterium modestum: a case report.	Shikama N, Takiguchi Y, Takeda M, Mori N, Ishio N.	Eur Heart J Case Rep	10.1093/ehjcr/ytae313	2024
Phylogeny	Unravelling the eco-specificity and pathophysiological properties of Cutibacterium species in the light of recent taxonomic changes.	Dekio I, Asahina A, Shah HN.	Anaerobe	10.1016/j.anaerobe.2021.102411	2021
Phylogeny	Misidentification of Cutibacterium namnetense as Cutibacterium acnes among clinical isolates by MALDI-TOF VitekMS: usefulness of gyrB sequencing and new player in bone infections.	Ruffier d'Epenoux L, Arshad N, Bemer P, Juvin ME, Le Gargasson G, Guillouzouic A, Corvec S.	Eur J Clin Microbiol Infect Dis	10.1007/s10096-020-03873-0	2020
Genetics	Dysbiosis and genomic plasticity in the oily scalp microbiome: a multi-omics analysis of dandruff pathogenesis.	Yu H, Li J, Wang Y, Zhang T, Mehmood T, Habimana O.	Front Microbiol	10.3389/fmicb.2025.1595030	2025
	Shotgun metagenomic sequencing reveals skin microbial variability from different facial sites.	Wei Q, Li Z, Gu Z, Liu X, Krutmann J, Wang J, Xia J.	Front Microbiol	10.3389/fmicb.2022.933189	2022
	Antibiotic resistance rates in Cutibacterium acnes isolated from patients with acne vulgaris: a systematic review and meta-analysis.	Zhu C, Wei B, Li Y, Wang C.	Front Microbiol	10.3389/fmicb.2025.1565111	2025
Phylogeny	First case of Cutibacterium avidum-infected pelvic lymphocele post-lymphadenectomy for endometrial cancer: A case report.	Toyoshima H, Tanigawa M, Nakamura K, Ishiguro C, Tanaka H, Nakanishi Y, Sakabe S.	Heliyon	10.1016/j.heliyon.2023.e21396	2023
	Rifampin-Resistant Cutibacterium (formerly Propionibacterium) namnetense Superinfection after Staphylococcus aureus Bone Infection Treatment.	Corvec S, Guillouzouic A, Aubin GG, Touchais S, Grossi O, Gouin F, Bemer P.	J Bone Jt Infect	10.7150/jbji.30029	2018
Genetics	Common Features and Intra-Species Variation of Cutibacterium modestum Strains, and Emended Description of the Species.	Dekio I, Okuda KI, Nishida M, Hamada-Tsutsumi S, Suzuki T, Kinoshita S, Tamura H, Ohnuma K, Murakami Y, Kinjo Y, Asahina A.	Microorganisms	10.3390/microorganisms9112343	2021
Pathogenicity	Cutibacterium avidum resists surgical skin antisepsis in the groin-a potential risk factor for periprosthetic joint infection: a quality control study.	Maurer SM, Kursawe L, Rahm S, Prinz J, Zinkernagel AS, Moter A, Kuster SP, Zbinden R, Zingg PO, Achermann Y.	Antimicrob Resist Infect Control	10.1186/s13756-021-00883-1	2021
	Microbial Community Characterization and Molecular Resistance Monitoring in Geriatric Intensive Care Units in China Using mNGS.	Yang J, Li L, Zhu X, He C, Li T, Qin J, Wang Y.	Infect Drug Resist	10.2147/idr.s421702	2023
	Summary of Novel Bacterial Isolates Derived from Human Clinical Specimens and Nomenclature Revisions Published in 2018 and 2019.	Munson E, Carroll KC.	J Clin Microbiol	10.1128/jcm.01309-20	2021
	Wastewater from the Edible Oil Industry as a Potential Source of Lipase- and Surfactant-Producing Actinobacteria.	Welz P, Swanepoel G, Weels S, Le Roes-Hill M.	Microorganisms	10.3390/microorganisms9091987	2021
Genetics	Draft Genome Sequence of Highly Rifampin-Resistant Propionibacterium namnetense NTS 31307302T Isolated from a Patient with a Bone Infection.	Aubin GG, Kambarev S, Bemer P, Lawson PA, Corvec S	Genome Announc	10.1128/genomeA.00819-16	2016
Phylogeny	Cutibacterium modestum sp. nov., isolated from meibum of human meibomian glands, and emended descriptions of Cutibacterium granulosum and Cutibacterium namnetense.	Dekio I, Sakamoto M, Suzuki T, Yuki M, Kinoshita S, Murakami Y, Ohkuma M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.004058	2020
Phylogeny	Propionibacterium namnetense sp. nov., isolated from a human bone infection.	Aubin GG, Bemer P, Kambarev S, Patel NB, Lemenand O, Caillon J, Lawson PA, Corvec S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001204	2016

References

#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 )
#24394	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29427
#43105	Guillaume Ghislain Aubin, Pascale Bemer, Stanimir Kambarev, Nisha B. Patel, Olivier Lemenand, Jocelyne Caillon, Paul A. Lawson, Stephane Corvec: Propionibacterium namnetense sp. nov., isolated from a human bone infection. IJSEM 66: 3393 - 3399 2016 ( DOI 10.1099/ijsem.0.001204 , PubMed 27259292 )
#63326	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 66358
#68380	Automatically annotated from API rID32A .
#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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Cutibacterium namnetense (DSM 29427, CCUG 66358, NTS 31307302)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001642025

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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