Name: Actinobaculum massiliense FC1
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 132079

Type strain:

Species: Actinobaculum massiliense

Strain Designation: FC1, FC3

Culture col. no.: DSM 100580, CSUR P1982

Strain history: <- S. Khelaifia, Timone Hospital, Marseille, France; FC3 <- Unité de Recherche sur les Maladies Infectieuses et Tropicales Émergentes

NCBI tax ID(s): 202789 (species)

Special Collections

Other strains from Actinobaculum massiliense

Section

Actinobaculum massiliense FC1 is an anaerobe, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from urine, 12-year-old patient with acute cystitis.

coccus-shaped
colony-forming
Gram-positive
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	*Actinobaculum*
	Species	"Actinobaculum massiliense"
	Full Scientific Name (LPSN)	Actinobaculum massiliense corrig. Greub and Raoult 2002

Synonym

"Actinobaculum massiliae"

Information on morphological and physiological properties Morphology

[Ref.: #43943]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %91.669

[Ref.: #43943]	Cell shape	coccus-shaped

[Ref.: #43943]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %95.5

[Ref.: #43943]	Type of hemolysis	alpha
[Ref.: #43943]	Hemolysis ability	1
[Ref.: #43943]	Colony size	0.5-1.5 mm
[Ref.: #43943]	Colony color	pale-grey
[Ref.: #43943]	Colony shape	circular
[Ref.: #43943]	Incubation period	3 days
[Ref.: #43943]	Cultivation medium used	Columbia agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #23870]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #23870]

Culture medium growth

[Ref.: #23870]

Culture medium link

Medium recipe at MediaDive

[Ref.: #23870]

Culture medium composition

expand / minimize

[Ref.: #43943]

Culture medium

Columbia agar

[Ref.: #43943]

Culture medium growth

[Ref.: #43943]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #23870]			growth	37 °C
[Ref.: #43943]			optimum	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43943]	Oxygen tolerance	anaerobe
[Ref.: #43943]	Oxygen tolerance	microaerophile

[Ref.: #43943]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %93.13

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #43943]	esculin ChEBI	-	hydrolysis
[Ref.: #43943]	gelatin ChEBI	-	hydrolysis
[Ref.: #43943]	glucose ChEBI	+	builds acid from
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #43943]	maltose ChEBI	+	builds acid from
[Ref.: #43943]	mannitol ChEBI	-	builds acid from
[Ref.: #43943]	mannose ChEBI	-	builds acid from
[Ref.: #43943]	nitrate ChEBI	-	reduction
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #43943]	raffinose ChEBI	-	builds acid from
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #43943]	ribose ChEBI	+	builds acid from
[Ref.: #43943]	sorbitol ChEBI	-	builds acid from
[Ref.: #43943]	starch ChEBI	-	builds acid from
[Ref.: #43943]	trehalose ChEBI	-	builds acid from
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #43943]	xylose ChEBI	+	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #43943]	amoxicillin ChEBI	yes
[Ref.: #43943]	cefotaxime ChEBI	yes
[Ref.: #43943]	ceftriaxone ChEBI	yes
[Ref.: #43943]	ciprofloxacin ChEBI		yes
[Ref.: #43943]	colistin ChEBI		yes
[Ref.: #43943]	doxycycline ChEBI	yes
[Ref.: #43943]	erythromycin ChEBI	yes
[Ref.: #43943]	fosfomycin ChEBI	yes
[Ref.: #43943]	gentamicin ChEBI		yes
[Ref.: #43943]	imipenem ChEBI	yes
[Ref.: #43943]	rifampicin ChEBI	yes
[Ref.: #43943]	vancomycin ChEBI	yes
	Only first 10 entries are displayed. Click here to see all.

	Group ID of combined antibiotics	Metabolite	Antibiotic sensitivity
[Ref.: #43943]	10	amoxicillin	yes
[Ref.: #43943]	10	clavulanic acid ChEBI	yes
[Ref.: #43943]	26	sulfamethoxazole ChEBI	yes
[Ref.: #43943]	26	trimethoprim ChEBI	yes

	Metabolite production	Metabolite	Production
[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.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #43943]	alkaline phosphatase	-	3.1.3.1
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #43943]	alpha-galactosidase	-	3.2.1.22
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #43943]	alpha-glucosidase	+	3.2.1.20
[Ref.: #68380]	alpha-glucosidase	+	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #43943]	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.: #43943]	beta-glucuronidase	+	3.2.1.31
[Ref.: #43943]	catalase	-	1.11.1.6
[Ref.: #43943]	cytochrome oxidase	-	1.9.3.1
[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.: #43943]	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.: #43943]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	+		* from API rID32A
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #43943]	pyrazinamidase	+/-	3.5.1.B15
[Ref.: #43943]	pyrrolidonyl arylamidase	-	3.4.19.3
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	+		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	+		* from API rID32A
[Ref.: #43943]	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.

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.: #23870]	12890	-	-	-	+/-	-	+	-	-	+/-	-	-	-	-	-	-	-	-	+/-	+	+	+	+	-	+	+	+	-	-	+

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

[Ref.: #23870]	Sample type/isolated from	urine, 12-year-old patient with acute cystitis
[Ref.: #23870]	Country	France
[Ref.: #23870]	Country ISO 3 Code	FRA
[Ref.: #23870]	Continent	Europe

[Ref.: #43943]	Sample type/isolated from	urine of a 12-year-old patient suffering from acute cystitis
[Ref.: #43943]	Sampling date	2015-04-15
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Host Body Product	#Fluids	#Urine
#Infection	#Patient	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LN870313 (>99% sequence identity) for Actinobaculum massiliense subclade from Microbeatlas

Aquatic Samples	21
Soil Samples	31
Animal Samples	1924
Plant Samples	1
Total Samples	1977

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

[Ref.: #23870]

Biosafety level

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.: #23870]	Actinobaculum massiliense partial 16S rRNA gene, strain FC3	LN870313	1501	GenBank ENA	202789 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Actinobaculum massiliense FC3	GCA_001457435	scaffold	GenBank ENA	202789 tax ID	*
[Ref.: #66792]	Actinobaculum massiliense FC3	2811995073	draft	JGI IMG/M	202789 tax ID	*

[Ref.: #23870]

GC-content

60.17 mol%

sequence analysis

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: Actinobaculum massiliense FC3 NCBI: GCA_001457435.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	91.669	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	58.429	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	82.362	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	93.13	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.682	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	95.5	no

Availability in culture collections External links

[Ref.: #23870]

Culture collection no.

DSM 100580, CSUR P1982

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of strain FC3(T) as the neotype strain of Actinobaculum massiliense.	Bakour S, Beye M, Raoult D, Fournier PE	Int J Syst Evol Microbiol	10.1099/ijsem.0.001110	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 )

#23870

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100580

#43943

Sofiane Bakour, Mamadou Beye, Didier Raoult, Pierre-Edouard Fournier: Description of strain FC3T as the neotype strain of Actinobaculum massiliense. IJSEM 66: 2702 - 2703 2016 ( DOI 10.1099/ijsem.0.001110 , PubMed 27117391 )

#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) .

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Actinobaculum massiliense in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Actinobaculum massiliense FC3

Change proposal

Change proposal