Name: Actinomyces massiliensis 4401292
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 192

Type strain:

Species: Actinomyces massiliensis

Strain Designation: 4401292

Culture col. no.: DSM 23047, CCUG 53522, KCTC 15158, CSUR P18, JCM 16130, CIP 109360

Strain history: CIP <- 2006, V. Roux, Timone Hosp., Marseille, France: strain 4401292

NCBI tax ID(s): 1167628 (strain), 461393 (species)

SI-ID 395408

DSM 23047

Special Collections

Section

Actinomyces massiliensis 4401292 is an anaerobe, Gram-positive, rod-shaped bacterium that was isolated from human blood .

Gram-positive
rod-shaped
anaerobe
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	*Actinomycetales*
	Family	*Actinomycetaceae*
	Genus	*Actinomyces*
	Species	**Actinomyces massiliensis**
	Full Scientific Name (LPSN)	Actinomyces massiliensis Renvoise et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #28916]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #120847]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %92.618

[Ref.: #28916]	Cell length	0.5-1.7 µm

[Ref.: #28916]	Cell width	0.35-0.74 µm

[Ref.: #28916]	Cell shape	rod-shaped
[Ref.: #120847]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #120847]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %93.375

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16669]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #16669]

Culture medium growth

[Ref.: #16669]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16669]

Culture medium composition

expand / minimize

[Ref.: #37528]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #37528]

Culture medium growth

[Ref.: #37528]

Culture medium composition

expand / minimize

[Ref.: #120847]

Culture medium

CIP Medium 6

[Ref.: #120847]

Culture medium growth

[Ref.: #120847]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #16669]	growth	37 °C
[Ref.: #28916]	growth	30-37 °C
[Ref.: #28916]	optimum	37 °C
[Ref.: #37528]	growth	30 °C
[Ref.: #59924]	growth	37 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #67771]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #16669]	Oxygen tolerance	anaerobe
[Ref.: #28916]	Oxygen tolerance	anaerobe
[Ref.: #59924]	Oxygen tolerance	microaerophile
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #120847]	Oxygen tolerance	facultative anaerobe

[Ref.: #28916]	Ability of spore formation	no
[Ref.: #67771]	Ability of spore formation	no

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #28916]	fructose ChEBI	+	carbon source
[Ref.: #28916]	galactose ChEBI	+	carbon source
[Ref.: #28916]	glucose ChEBI	+	carbon source
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #28916]	lactose ChEBI	+	carbon source
[Ref.: #28916]	maltose ChEBI	+	carbon source
[Ref.: #28916]	mannose ChEBI	+	carbon source
[Ref.: #28916]	nitrate ChEBI	+	reduction
[Ref.: #120847]	nitrate ChEBI	+	reduction
[Ref.: #68380]	nitrate ChEBI	+	reduction	* from API rID32A
[Ref.: #120847]	nitrite ChEBI	+	reduction
[Ref.: #28916]	ribose ChEBI	+	carbon source
[Ref.: #28916]	sucrose ChEBI	+	carbon source
[Ref.: #28916]	trehalose ChEBI	+	carbon source
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #28916]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #120847]		indole ChEBI	no
[Ref.: #68380]		indole ChEBI	no	* from API rID32A

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

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym, API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym, API rID32A
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym, API rID32A
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API rID32A
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym, API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API rID32A
[Ref.: #120847]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine arylamidase	-		* from API rID32A
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym, API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API rID32A
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #120847]	oxidase	-
[Ref.: #68380]	phenylalanine arylamidase	+		* from API rID32A
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	+		* from API rID32A
[Ref.: #120847]	urease	-	3.5.1.5
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #16669]	12774	-	-	-	+	-	+	-	-	-	-	+/-	+/-	-	-	+	-	-	-	+	-	+	+	-	+	-	-	-	-	-

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #120847]	11815	-	-	+	-	-	+	-	-	-	-	+	+	-	+	-	+	+	-	-	-

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

[Ref.: #16669]	Sample type/isolated from	human blood (pleuropneumonia)
[Ref.: #16669]	Geographic location (country and/or sea, region)	Marseille
[Ref.: #16669]	Country	France
[Ref.: #16669]	Country ISO 3 Code	FRA
[Ref.: #16669]	Continent	Europe

[Ref.: #59924]	Sample type/isolated from	Human blood,39-yr-old man,pleuropneumonia
[Ref.: #59924]	Sampling date	2004-05-01
[Ref.: #59924]	Geographic location (country and/or sea, region)	Marseille,Timone hospital
[Ref.: #59924]	Country	France
[Ref.: #59924]	Country ISO 3 Code	FRA
[Ref.: #59924]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Human blood sample

[Ref.: #67771]	Sample type/isolated from	From human blood (pleuropneumonia)
[Ref.: #67771]	Geographic location (country and/or sea, region)	Marseille
[Ref.: #67771]	Country	France
[Ref.: #67771]	Country ISO 3 Code	FRA
[Ref.: #67771]	Continent	Europe

[Ref.: #120847]	Sample type/isolated from	Human, Blood
[Ref.: #120847]	Geographic location (country and/or sea, region)	Marseille
[Ref.: #120847]	Country	France
[Ref.: #120847]	Country ISO 3 Code	FRA
[Ref.: #120847]	Continent	Europe
[Ref.: #120847]	Isolation date	2004
* marker position based on {}

Isolation sources categories

#Infection	#Inflammation	-
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Lung
#Host Body Product	#Fluids	#Blood

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB545934 (>99% sequence identity) for Actinomyces massiliensis subclade from Microbeatlas

Aquatic Samples	1557
Soil Samples	995
Animal Samples	45755
Plant Samples	370
Total Samples	48677

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

[Ref.: #16669]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #120847]	Biosafety level	2	Risk group (French classification)

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.: #16669]	Actinomyces massiliensis strain 4401292 16S ribosomal RNA gene, partial sequence	EF558367	1481	GenBank ENA	1167628 tax ID
[Ref.: #67771]	Actinomyces massiliensis gene for 16S ribosomal RNA, partial sequence	AB545934	1520	GenBank ENA	1167628 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67771]	Actinomyces massiliensis 4401292	GCA_000269805	scaffold	GenBank ENA	1167628 tax ID
[Ref.: #66792]	Actinomyces massiliensis 4401292	1167628.4	wgs	PATRIC	1167628 tax ID	*
[Ref.: #66792]	Actinomyces massiliensis 4401292	2548876973	draft	JGI IMG/M	1167628 tax ID	*

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Actinomyces massiliensis 4401292 PATRIC: 1167628.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	92.618	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	73.625	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	78.849	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	76.632	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	93.7	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	93.375	no

Availability in culture collections External links

[Ref.: #16669]

Culture collection no.

DSM 23047, CCUG 53522, KCTC 15158, CSUR P18, JCM 16130, CIP 109360

[Ref.: #69874]	SI-ID 395408	*
[Ref.: #69875]	SI-ID 408795	*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft genome sequence of Actinomyces massiliensis strain 4401292T.	Roux V, Robert C, Gimenez G, Gharbi R, Raoult D	J Bacteriol	10.1128/JB.01039-12	2012	*
Phylogeny	Actinomyces massiliensis sp. nov., isolated from a patient blood culture.	Renvoise A, Raoult D, Roux V	Int J Syst Evol Microbiol	10.1099/ijs.0.001503-0	2009	*

References

#16669

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23047

#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 )

#28916

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 #25355 (see below)

#37528 ; Curators of the CIP;
#59924 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 53522

#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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68380

Automatically annotated from API rID32A .

#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 .

#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) .

#69874

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-ID395408.1 )

#69875

#120847 Collection of Institut Pasteur ; Curators of the CIP; CIP 109360

#25355

IJSEM 540 2009 ( DOI 10.1099/ijs.0.001503-0 , PubMed 19244437 )

* These data were automatically processed and therefore are not curated

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