Name: Actinomyces ruminicola B71
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23522

Type strain:

Species: Actinomyces ruminicola

Strain Designation: B71

Culture col. no.: DSM 27982, CGMCC 1.5030, JCM 13352, CIP 109388, CGMCC 15030

Strain history: CIP <- 2006, JCM <- D. An strain: B71

NCBI tax ID(s): 332524 (species)

SI-ID 297111

CGMCC 1.5030, JCM 13352, CIP 109388, DSM 27982

Section

Actinomyces ruminicola B71 is an obligate anaerobe, mesophilic, Gram-positive bacterium that was isolated from cattle rumen, 4-years-old bullock.

Gram-positive
mesophilic
obligate 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 ruminicola**
	Full Scientific Name (LPSN)	Actinomyces ruminicola An et al. 2006

Information on morphological and physiological properties Morphology

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

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20246]

Culture medium

BHI MEDIUM (DSMZ Medium 215)

[Ref.: #20246]

Culture medium growth

[Ref.: #20246]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20246]

Culture medium composition

expand / minimize

[Ref.: #20246]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #20246]

Culture medium growth

[Ref.: #20246]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20246]

Culture medium composition

expand / minimize

[Ref.: #36054]

Culture medium

MEDIUM 20 - for Anaerobic bacteria

[Ref.: #36054]

Culture medium growth

[Ref.: #36054]

Culture medium composition

expand / minimize

[Ref.: #122310]

Culture medium

CIP Medium 20

[Ref.: #122310]

Culture medium growth

[Ref.: #122310]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #20246]	growth	37 °C
[Ref.: #36054]	growth	45 °C
[Ref.: #67770]	growth	46 °C

[Ref.: #20246]	Temperature range	mesophilic
[Ref.: #36054]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #20246]	Oxygen tolerance	obligate anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.65

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.995

[Ref.: #67770]

Observation

quinones: MK-10 (70%), MK-9 (30%)

	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.: #68375]	D-glucose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	D-mannitol ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	D-mannose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	D-ribose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	esculin ChEBI	+	hydrolysis	* from API ID32STA
[Ref.: #68375]	lactose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	N-acetylglucosamine ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	nitrate ChEBI	-	reduction	* from API ID32STA
[Ref.: #68375]	ornithine ChEBI	-	degradation	* from API ID32STA
[Ref.: #68375]	raffinose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	sucrose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	trehalose ChEBI	-	fermentation	* from API ID32STA
[Ref.: #68375]	turanose ChEBI	+	fermentation	* from API ID32STA
[Ref.: #68375]	urea ChEBI	-	hydrolysis	* from API ID32STA
	Only first 10 entries are displayed. Click here to see all.

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

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

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #68375]		acetoin ChEBI	-	* from API ID32STA

	Enzyme	Enzyme activity	EC number
[Ref.: #68375]	alkaline phosphatase	+	3.1.3.1	* from API ID32STA
[Ref.: #68375]	arginine dihydrolase	-	3.5.3.6	* from API ID32STA
[Ref.: #68375]	beta-galactosidase	-	3.2.1.23	* from API ID32STA
[Ref.: #68375]	beta-glucosidase	+	3.2.1.21	* from API ID32STA
[Ref.: #68375]	beta-glucuronidase	-	3.2.1.31	* from API ID32STA
[Ref.: #68375]	L-arginine arylamidase	-		* from API ID32STA
[Ref.: #68375]	ornithine decarboxylase	-	4.1.1.17	* from API ID32STA
[Ref.: #68375]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API ID32STA
[Ref.: #68375]	urease	-	3.5.1.5	* from API ID32STA

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.: #20246]	6166	-	-	-	+	-	+	+	+/-	-	-	+	-	-	-	-	-	-	-	+	-	+	+	-	+	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	cellulose degradation	100	5 of 5
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	myo-inositol biosynthesis	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	palmitate biosynthesis	86.36	19 of 22
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	pyrimidine metabolism	82.22	37 of 45
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	purine metabolism	74.47	70 of 94
[Ref.: #66794]	pentose phosphate pathway	72.73	8 of 11
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	vitamin B1 metabolism	61.54	8 of 13
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	degradation of pentoses	57.14	16 of 28
[Ref.: #66794]	oxidative phosphorylation	56.04	51 of 91
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	isoprenoid biosynthesis	53.85	14 of 26
[Ref.: #66794]	flavin biosynthesis	53.33	8 of 15
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	methionine metabolism	50	13 of 26
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	arginine metabolism	50	12 of 24
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	gluconeogenesis	50	4 of 8
[Ref.: #66794]	alanine metabolism	48.28	14 of 29
[Ref.: #66794]	glutamate and glutamine metabolism	46.43	13 of 28
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	lipid metabolism	45.16	14 of 31
[Ref.: #66794]	daunorubicin biosynthesis	44.44	4 of 9
[Ref.: #66794]	cysteine metabolism	44.44	8 of 18
[Ref.: #66794]	degradation of sugar acids	44	11 of 25
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	tryptophan metabolism	42.11	16 of 38
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	histidine metabolism	41.38	12 of 29
[Ref.: #66794]	D-cycloserine biosynthesis	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	lysine metabolism	35.71	15 of 42
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	28.57	2 of 7
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	butanoate fermentation	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #20246]	Sample type/isolated from	cattle rumen, 4-years-old bullock
[Ref.: #20246]	Country	China
[Ref.: #20246]	Country ISO 3 Code	CHN
[Ref.: #20246]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Cattle rumen

[Ref.: #122310]	Sample type/isolated from	Animal, Cattle rumen
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Organ	#Rumen

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ072005 (>99% sequence identity) for Actinomyces ruminicola subclade from Microbeatlas

Aquatic Samples	3
Soil Samples	11
Animal Samples	299
Plant Samples	18
Total Samples	331

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

[Ref.: #20246]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122310]	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.: #20246]	Actinomyces ruminicola strain B71 16S ribosomal RNA gene, partial sequence	DQ072005	1526	ENA	332524 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Actinomyces ruminicola DSM 27982	GCA_900103885	scaffold	GenBank	332524 tax ID
[Ref.: #66792]	Actinomyces ruminicola strain DSM 27982	332524.10	wgs	PATRIC	332524 tax ID	*
[Ref.: #66792]	Actinomyces ruminicola DSM 27982	2651870319	draft	JGI IMG/M	332524 tax ID	*

[Ref.: #20246]

GC-content

68.06 mol%

thermal denaturation, midpoint method (Tm)

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 ruminicola DSM 27982 NCBI: GCA_900103885.1
[Ref.: #69481]	spore-forming	no	57	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Actinomyces ruminicola strain DSM 27982 PATRIC: 332524.10
[Ref.: #69480]	gram-positive	yes	96.836	no
[Ref.: #69480]	anaerobic	no	51.995	yes
[Ref.: #69480]	halophile	no	87.226	no
[Ref.: #69480]	spore-forming	no	93.262	no
[Ref.: #69480]	glucose-util	yes	89.17	no
[Ref.: #69480]	motile	no	93.85	no
[Ref.: #69480]	flagellated	no	97.634	no
[Ref.: #69480]	thermophile	no	92.915	no
[Ref.: #69480]	aerobic	no	95.542	no
[Ref.: #69480]	glucose-ferment	yes	76.556	yes

Availability in culture collections External links

[Ref.: #20246]

Culture collection no.

DSM 27982, CGMCC 1.5030, JCM 13352, CIP 109388, CGMCC 15030

[Ref.: #87628]

SI-ID 297111

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Actinomyces ruminicola sp. nov., isolated from cattle rumen.	An D, Cai S, Dong X	Int J Syst Evol Microbiol	10.1099/ijs.0.64059-0	2006	*
Phylogeny	Characterization of a xylanolytic bacterial strain C10 isolated from the rumen of a red deer (Cervus elaphus) closely related of the recently described species Actinomyces succiniciruminis, A. glycerinitolerans, and A. ruminicola.	Simunek J Jr, Killer J, Sechovcova H, Simunek J, Pechar R, Rada V, Svec P, Sedlacek I	Folia Microbiol (Praha)	10.1007/s12223-017-0577-9	2017	*
Phylogeny	Actinomyces succiniciruminis sp. nov. and Actinomyces glycerinitolerans sp. nov., two novel organic acid-producing bacteria isolated from rumen.	Palakawong N A S, Pristas P, Hrehova L, Javorsky P, Stams AJ, Plugge CM	Syst Appl Microbiol	10.1016/j.syapm.2016.08.001	2016	*
Phylogeny	Actinomyces ruminis sp. nov., an obligately anaerobic bacterium isolated from the rumen of cattle.	Lanjekar VB, Hivarkar SS, Vasudevan G, Joshi A, Dhakephalkar PK, Dagar SS	Arch Microbiol	10.1007/s00203-022-03339-1	2022	*

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 )

#20246

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27982

#36054 ; Curators of the CIP;

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68375

Automatically annotated from API ID32STA .

#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 )

#87628

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-ID297111.1 )

#122310 Collection of Institut Pasteur ; Curators of the CIP; CIP 109388
* These data were automatically processed and therefore are not curated

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Actinomyces ruminicola DSM 27982

Actinomyces ruminicola strain DSM 27982

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