Name: Actinomyces radicidentis AO 96-06841
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 176

Type strain:

Species: Actinomyces radicidentis

Strain Designation: AO 96-06841

Culture col. no.: DSM 15433, CCUG 36733, CIP 106352

Strain history: CIP <- 1999, CCUG <- 1996,T. Monsen, PHLS, Umea, Sweden: strain AO 96-06841

NCBI tax ID(s): 111015 (species)

SI-ID 53001

CCUG 36733, CIP 106352, DSM 15433

Other strains from Actinomyces radicidentis

A. radicidentis 99-4242, CIP 106353, CCUG 42377
A. radicidentis CCUG 64152

Section

Actinomyces radicidentis AO 96-06841 is a microaerophile, mesophilic bacterium that was isolated from infected human tooth root.

mesophilic
microaerophile
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 radicidentis**
	Full Scientific Name (LPSN)	Actinomyces radicidentis Collins et al. 2001

Information on morphological and physiological properties Morphology

[Ref.: #122114]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #122114]	Cell shape	coccus-shaped

[Ref.: #122114]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %94.004

[Ref.: #122114]

Hemolysis ability

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5818]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #5818]

Culture medium growth

[Ref.: #5818]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5818]

Culture medium composition

expand / minimize

[Ref.: #5818]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #5818]

Culture medium growth

[Ref.: #5818]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5818]

Culture medium composition

expand / minimize

[Ref.: #42163]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #42163]

Culture medium growth

[Ref.: #42163]

Culture medium composition

expand / minimize

[Ref.: #122114]

Culture medium

CIP Medium 6-Boites-Biorad

[Ref.: #122114]

Culture medium growth

[Ref.: #122114]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #122114]

Culture medium

CIP Medium 6

[Ref.: #122114]

Culture medium growth

[Ref.: #122114]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5818]		growth	37 °C
[Ref.: #42163]		growth	37 °C
[Ref.: #122114]		growth	25-45 °C
[Ref.: #122114]	no	growth	10 °C

[Ref.: #5818]	Temperature range	mesophilic
[Ref.: #42163]	Temperature range	mesophilic
[Ref.: #122114]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5818]	Oxygen tolerance	microaerophile
[Ref.: #122114]	Oxygen tolerance	facultative anaerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.998

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #122114]		NaCl		growth	0-10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68375]	arabinose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	arginine ChEBI	-	hydrolysis	* from API ID32STA
[Ref.: #68375]	cellobiose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	D-fructose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68379]	D-glucose ChEBI	+	fermentation	* from API Coryne, API ID32STA
[Ref.: #68379]	D-mannitol ChEBI	+	fermentation	* from API Coryne, API ID32STA
[Ref.: #68375]	D-mannose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68379]	D-ribose ChEBI	+	fermentation	* from API Coryne, API ID32STA
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #122114]	esculin ChEBI	+	hydrolysis
[Ref.: #68379]	esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #68375]	esculin ChEBI	-	hydrolysis	* from API ID32STA
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #122114]	hippurate ChEBI	-	hydrolysis
[Ref.: #68379]	lactose ChEBI	+	fermentation	* from API Coryne, API ID32STA
[Ref.: #68379]	maltose ChEBI	+	fermentation	* from API Coryne, API ID32STA
[Ref.: #68375]	N-acetylglucosamine ChEBI	+	fermentation	* from API ID32STA
[Ref.: #122114]	nitrate ChEBI	-	reduction
[Ref.: #122114]	nitrate ChEBI	+	respiration
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne, API ID32STA
[Ref.: #122114]	nitrite ChEBI	+	reduction
[Ref.: #68375]	ornithine ChEBI	-	degradation	* from API ID32STA
[Ref.: #68375]	raffinose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne, API ID32STA
[Ref.: #68375]	trehalose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	turanose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68379]	urea ChEBI	-	hydrolysis	* from API Coryne, API ID32STA
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Concentration
[Ref.: #68375]		novobiocin ChEBI	yes	1.8	µg	* from API ID32STA

	Metabolite production	Metabolite	Production
[Ref.: #122114]		indole ChEBI	no
[Ref.: #68375]		acetoin ChEBI	no	* from API ID32STA

	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #122114]	acetoin ChEBI	-
[Ref.: #122114]	glucose ChEBI		+
[Ref.: #68375]	acetoin ChEBI	-		* from API ID32STA

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #122114]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym, API ID32STA, API Coryne
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API Coryne
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #122114]	amylase	+
[Ref.: #68375]	arginine dihydrolase	-	3.5.3.6	* from API ID32STA
[Ref.: #122114]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym, API ID32STA, API Coryne
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym, API Coryne
[Ref.: #68375]	beta-glucosidase	-	3.2.1.21	* from API ID32STA
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym, API ID32STA, API Coryne
[Ref.: #122114]	caseinase	+	3.4.21.50
[Ref.: #122114]	catalase	+	1.11.1.6
[Ref.: #68379]	catalase	+	1.11.1.6	* from API Coryne
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #122114]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #122114]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #122114]	gelatinase	+/-
[Ref.: #68375]	L-arginine arylamidase	-		* from API ID32STA
[Ref.: #122114]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #122114]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #122114]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym, API Coryne
[Ref.: #122114]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68375]	ornithine decarboxylase	-	4.1.1.17	* from API ID32STA
[Ref.: #122114]	oxidase	-
[Ref.: #122114]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #122114]	protease	-
[Ref.: #68379]	pyrazinamidase	+	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	+	3.4.19.3	* from API Coryne
[Ref.: #68375]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API ID32STA
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #122114]	tryptophan deaminase	-
[Ref.: #122114]	tween esterase	+
[Ref.: #122114]	urease	-	3.5.1.5
[Ref.: #68375]	urease	-	3.5.1.5	* from API ID32STA, API Coryne
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #53356]

Fatty acid	Percentage	ECL
C16:0	45.2	16
C18:1 ω9c	41.8	17.769
C16:1 ω9c	2.9	15.774
C18:2 ω6,9c/C18:0 ANTE	2.6	17.724
C14:0	2.6	14
C18:0	1.5	18
C12:0	1.4	12
C10:0	1.1	10
Unidentified	0.8	18.221

Metadata FA analysis

Reference

[Ref.: #53356]

Fatty acid	Percentage	ECL
C16:0	47.5	16
C18:1 ω9c	38.4	17.769
C16:1 ω9c	3.6	15.774
C14:0	2.9	14
C18:2 ω6,9c/C18:0 ANTE	2.1	17.724
C10:0	1.7	10
Unidentified	1.2	18.225
C18:0	1	18
C12:0	0.9	12
C16:0 3OH	0.6	17.52

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #53356]	2985	-	+	+	-	-	+	+	-	+	-	+	-	+	+	-	+	+	+	+	-	+
[Ref.: #5818]	4260	-	+	+	-	-	+	+	-	+	-	-	-	+	+	-	+	+	+	+	-	+

API® ID32STA:

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

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	Ornithine decarboxylaseODC	Esculin hydrolysisESC	Fermentation of D-glucoseGLU	Fermentation of D-fructoseFRU	Fermentation of D-mannoseMNE	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of trehaloseTRE	Fermentation of D-mannitolMAN	Fermentation of raffinoseRAF	Fermentation of D-riboseRIB	Fermentation of cellobioseCEL	Reduction of nitrateNIT	Acetoin production (Voges Proskauer test)VP	beta-Galactosidasebeta GAL	L-arginine arylamidaseArgA	Alkaline phosphatasePAL	Pyrrolidonyl arylamidasePyrA	Novobiocin resistanceNOVO	Fermentation of sucroseSAC	Fermentation of N-acetyl-glucosamineNAG	Fermentation of turanoseTUR	Fermentation of arabinoseARA	beta-Glucuronidasebeta GUR
[Ref.: #53356]	2079	-	-	-	-	+	+	+	+	+	+	+	+	+	-	-	-	+	-	-	-	-	+	+	+	-	-

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.: #53356]	4609	-	-	+	-	-	+	-	-	-	-	+	-	+	+	-	+	+	-	-	-
[Ref.: #122114]	9427	-	-	+	+	-	+	-	-	-	-	+	+	+	+	-	+	+	-	-	-

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

[Ref.: #5818]	Sample type/isolated from	infected human tooth root
[Ref.: #5818]	Geographic location (country and/or sea, region)	Umea
[Ref.: #5818]	Country	Sweden
[Ref.: #5818]	Country ISO 3 Code	SWE
[Ref.: #5818]	Continent	Europe

[Ref.: #53356]	Sample type/isolated from	Human tooth root infection
[Ref.: #53356]	Sampling date	1996-09-01
[Ref.: #53356]	Geographic location (country and/or sea, region)	Umeå
[Ref.: #53356]	Country	Sweden
[Ref.: #53356]	Country ISO 3 Code	SWE
[Ref.: #53356]	Continent	Europe

[Ref.: #122114]	Sample type/isolated from	Human, Tooth root infection
[Ref.: #122114]	Geographic location (country and/or sea, region)	Umea
[Ref.: #122114]	Country	Sweden
[Ref.: #122114]	Country ISO 3 Code	SWE
[Ref.: #122114]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Tooth

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ251986 (>99% sequence identity) for Actinomyces radicidentis subclade from Microbeatlas

Aquatic Samples	168
Soil Samples	59
Animal Samples	5074
Plant Samples	29
Total Samples	5330

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

[Ref.: #5818]	Biosafety level	2	Risk group (German classification) According to TRBA 466
[Ref.: #122114]	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.: #5818]	Actinomyces radicidentis partial 16S rRNA gene	AJ251986	1401	ENA	111015 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Actinomyces radicidentis CCUG 36733	GCA_001553565	complete	GenBank	111015 tax ID	*
[Ref.: #66792]	Actinomyces radicidentis strain CCUG 36733	111015.3	complete	PATRIC	111015 tax ID	*
[Ref.: #66792]	Actinomyces radicidentis CCUG 36733	2687453525	complete	JGI IMG/M	111015 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Actinomyces radicidentis CCUG 36733 NCBI: GCA_001553565.1
[Ref.: #69481]	spore-forming	no	60	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Actinomyces radicidentis CCUG 36733 NCBI: GCA_001553565.1
[Ref.: #69480]	flagellated	no	97.25	no
[Ref.: #69480]	gram-positive	yes	93.465	no
[Ref.: #69480]	anaerobic	no	95.917	yes
[Ref.: #69480]	aerobic	no	84.336	no
[Ref.: #69480]	halophile	no	87.104	no
[Ref.: #69480]	spore-forming	no	96.432	no
[Ref.: #69480]	thermophile	no	97.396	yes
[Ref.: #69480]	glucose-util	yes	87.803	no
[Ref.: #69480]	motile	no	92.12	no
[Ref.: #69480]	glucose-ferment	yes	79.3	yes

Availability in culture collections External links

[Ref.: #5818]

Culture collection no.

DSM 15433, CCUG 36733, CIP 106352

[Ref.: #69858]

SI-ID 53001

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Characterization of Actinomyces isolates from infected root canals of teeth: description of Actinomyces radicidentis sp. nov.	Collins MD, Hoyles L, Kalfas S, Sundquist G, Monsen T, Nikolaitchouk N, Falsen E	J Clin Microbiol	10.1128/JCM.38.9.3399-3403.2000	2000	*

References

#5818

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15433

#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 )

#42163 ; Curators of the CIP;
#53356 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 36733

#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) .

#68375

Automatically annotated from API ID32STA .

#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 .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#69858

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-ID53001.1 )

#122114 Collection of Institut Pasteur ; Curators of the CIP; CIP 106352
* These data were automatically processed and therefore are not curated

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Actinomyces radicidentis CCUG 36733

Actinomyces radicidentis CCUG 36733

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