Name: Cutibacterium namnetense DSM 29427
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132605

Type strain:

Species: Cutibacterium namnetense

Culture col. no.: DSM 29427, CCUG 66358, NTS 31307302

Strain history: <- S. Corvec, Nantes Univ. Hospital, Bacteriology Unit, France <- P. Bremer

NCBI tax ID(s): 1574624 (species)

SI-ID 401705

DSM 29427, CCUG 66358

Section

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

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Propionibacteriales*
	Family	*Propionibacteriaceae*
	Genus	*Cutibacterium*
	Species	**Cutibacterium namnetense**
	Full Scientific Name (LPSN)	Cutibacterium namnetense (Aubin et al. 2016) Nouioui et al. 2018

Synonym

Propionibacterium namnetense

Information on morphological and physiological properties Morphology

[Ref.: #43105]	Gram stain	positive

[Ref.: #43105]	Cell length	1.5-7 µm

[Ref.: #43105]	Cell width	0.7-0.8 µm

[Ref.: #43105]	Cell shape	pleomorphic-shaped

[Ref.: #43105]	Motility	no

[Ref.: #43105]	Colony size	2 mm
[Ref.: #43105]	Colony color	pale cream to orange-salmon
[Ref.: #43105]	Colony shape	circular
[Ref.: #43105]	Incubation period	6 days
[Ref.: #43105]	Cultivation medium used	Schaedler blood agar

[Ref.: #63326]	Incubation period	2 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43105]

Culture medium

Schaedler blood agar

[Ref.: #43105]

Culture medium growth

[Ref.: #24394]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #24394]

Culture medium growth

[Ref.: #24394]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24394]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #24394]	growth	37 °C
[Ref.: #43105]	optimum	35 °C
[Ref.: #43105]	growth	20-42 °C
[Ref.: #63326]	growth	37 °C

[Ref.: #24394]	Temperature range	mesophilic
[Ref.: #43105]	Temperature range	mesophilic
[Ref.: #63326]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43105]			growth	4.0-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43105]	Oxygen tolerance	anaerobe
[Ref.: #43105]	Oxygen tolerance	aerotolerant
[Ref.: #63326]	Oxygen tolerance	anaerobe

[Ref.: #43105]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43105]		NaCl		growth	4	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43105]	(S)-lactate ChEBI	+	respiration
[Ref.: #43105]	2-deoxyadenosine ChEBI	+	respiration
[Ref.: #43105]	2-oxobutanoate ChEBI	+	respiration
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #43105]	beta-d-glucose ChEBI	+	respiration
[Ref.: #43105]	cellobiose ChEBI	+	respiration
[Ref.: #43105]	D-fructose ChEBI	+	respiration
[Ref.: #43105]	D-galactose ChEBI	+	respiration
[Ref.: #43105]	D-glucose ChEBI	+	assimilation
[Ref.: #43105]	D-glucose 6-phosphate ChEBI	+	respiration
[Ref.: #43105]	D-mannitol ChEBI	-	assimilation
[Ref.: #43105]	D-mannose ChEBI	+	respiration
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #43105]	D-ribose ChEBI	+	assimilation
[Ref.: #43105]	D-sorbitol ChEBI	+	respiration
[Ref.: #43105]	dextrin ChEBI	+	respiration
[Ref.: #43105]	erythritol ChEBI	+	respiration
[Ref.: #43105]	esculin ChEBI	-	hydrolysis
[Ref.: #43105]	gelatin ChEBI	+	hydrolysis
[Ref.: #43105]	glycerol ChEBI	+	respiration
[Ref.: #43105]	L-alaninamide ChEBI	+	respiration
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #43105]	lactate ChEBI	+	respiration
[Ref.: #43105]	lactose ChEBI	-	assimilation
[Ref.: #43105]	maltose ChEBI	-	assimilation
[Ref.: #43105]	maltotriose ChEBI	+	respiration
[Ref.: #43105]	methyl beta-D-galactoside ChEBI	+	respiration
[Ref.: #43105]	methyl beta-D-glucopyranoside ChEBI	+	respiration
[Ref.: #43105]	methyl pyruvate ChEBI	+	respiration
[Ref.: #43105]	monomethyl succinate ChEBI	+	respiration
[Ref.: #43105]	N-acetyl-beta-D-mannosamine ChEBI	+	respiration
[Ref.: #43105]	N-acetylglucosamine ChEBI	+	respiration
[Ref.: #43105]	nitrate ChEBI	+	reduction
[Ref.: #68380]	nitrate ChEBI	+	reduction	* from API rID32A
[Ref.: #43105]	palatinose ChEBI	+	respiration
[Ref.: #43105]	pyruvate ChEBI	+	respiration
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #43105]	succinamate ChEBI	+	respiration
[Ref.: #43105]	succinate ChEBI	+	respiration
[Ref.: #43105]	sucrose ChEBI	-	assimilation
[Ref.: #43105]	sucrose ChEBI	+	respiration
[Ref.: #43105]	thymidine ChEBI	+	respiration
[Ref.: #43105]	trehalose ChEBI	+	respiration
[Ref.: #68380]	tryptophan ChEBI	+	energy source	* from API rID32A
[Ref.: #43105]	turanose ChEBI	+	respiration
[Ref.: #68380]	urea ChEBI	+	hydrolysis	* from API rID32A
[Ref.: #43105]	uridine ChEBI	+	respiration
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43105]		indole ChEBI	yes
[Ref.: #68380]		indole ChEBI	yes	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	+	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #43105]	6-phospho-beta-galactosidase	-	3.2.1.85
[Ref.: #43105]	alanine arylamidase	+	3.4.11.2
[Ref.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #43105]	alkaline phosphatase	-	3.1.3.1
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #43105]	alpha-arabinosidase	-	3.2.1.55
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #43105]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #43105]	alpha-galactosidase	+/-	3.2.1.22
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #43105]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43105]	arginine arylamidase	-
[Ref.: #43105]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #43105]	beta-galactosidase	+	3.2.1.23
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #43105]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #43105]	catalase	+	1.11.1.6
[Ref.: #43105]	glutamate decarboxylase	-	4.1.1.15
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #43105]	glycin arylamidase	+
[Ref.: #68380]	glycin arylamidase	+		* from API rID32A
[Ref.: #43105]	histidine arylamidase	-
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine arylamidase	-		* from API rID32A
[Ref.: #43105]	leucine arylamidase	-	3.4.11.1
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #43105]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #43105]	phenylalanine arylamidase	-
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #43105]	proline-arylamidase	-	3.4.11.5
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #43105]	pyrazinamidase	+	3.5.1.B15
[Ref.: #43105]	pyroglutamic acid arylamidase	-
[Ref.: #43105]	pyrrolidonyl arylamidase	-	3.4.19.3
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #43105]	serine arylamidase	+
[Ref.: #68380]	serine arylamidase	+		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	+	4.1.99.1	* from API rID32A
[Ref.: #43105]	tyrosine arylamidase	-
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #43105]	urease	-	3.5.1.5
[Ref.: #68380]	urease	+	3.5.1.5	* from API rID32A
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43105]

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

API® rID32A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #24394]	12854	+	-	-	+/-	-	+/-	-	-	-	-	-	-	-	-	+	+	-	-	+	-	-	-	-	-	+	+	-	-	+

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #24394]	Sample type/isolated from	surgical samples of human bone infection
[Ref.: #24394]	Geographic location (country and/or sea, region)	Nantes
[Ref.: #24394]	Country	France
[Ref.: #24394]	Country ISO 3 Code	FRA
[Ref.: #24394]	Continent	Europe

[Ref.: #43105]	Sample type/isolated from	clinical bone samples recovered from a 21-year-old male patient during the surgical treatment of a tibia external fixator infection
[Ref.: #43105]	Geographic location (country and/or sea, region)	Nantes
[Ref.: #43105]	Country	France
[Ref.: #43105]	Country ISO 3 Code	FRA
[Ref.: #43105]	Continent	Europe

[Ref.: #63326]	Sample type/isolated from	Human bone infection,tissue sample
[Ref.: #63326]	Sampling date	2013-07-25
[Ref.: #63326]	Geographic location (country and/or sea, region)	Nantes
[Ref.: #63326]	Country	France
[Ref.: #63326]	Country ISO 3 Code	FRA
[Ref.: #63326]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Host	#Human	-
#Host Body-Site	#Other	#Bone

What are isolation sources categories?

[Ref.: #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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #24394]	Pathogenicity (human)	yes, in single cases
[Ref.: #24394]	Biosafety level	1	Risk group (German classification) According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #24394]	[Propionibacterium] namnetense strain NTS 31307302 16S ribosomal RNA gene, partial sequence	KM507346	1424	ENA	1574624 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Propionibacterium namnetense strain NTS 31307302	1574624.3	wgs	PATRIC	1574624 tax ID	*

[Ref.: #43105]	GC-content	59.7 mol%
[Ref.: #24394]	GC-content	59.7 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Propionibacterium namnetense strain NTS 31307302 PATRIC: 1574624.3
[Ref.: #69480]	motile	no	95.226	no
[Ref.: #69480]	gram-positive	yes	92.277	yes
[Ref.: #69480]	anaerobic	yes	61.651	no
[Ref.: #69480]	aerobic	no	86.411	yes
[Ref.: #69480]	halophile	no	81.721	no
[Ref.: #69480]	spore-forming	no	90.005	yes
[Ref.: #69480]	glucose-util	yes	91.301	yes
[Ref.: #69480]	flagellated	no	98.495	yes
[Ref.: #69480]	thermophile	no	79.246	yes
[Ref.: #69480]	glucose-ferment	yes	77.448	no

Availability in culture collections External links

[Ref.: #24394]

Culture collection no.

DSM 29427, CCUG 66358, NTS 31307302

[Ref.: #90920]

SI-ID 401705

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	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

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#90920

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID401705.1 )

* These data were automatically processed and therefore are not curated

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Propionibacterium namnetense strain NTS 31307302

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