Actinomyces ruminicola (DSM 27982, CGMCC 1.5030, JCM 13352)

Name: Actinomyces ruminicola (DSM 27982, CGMCC 1.5030, JCM 13352)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23522

Type strain

Strain Designation B71

Culture col. no. DSM 27982 CGMCC 1.5030 JCM 13352 B71 CIP 109388 1 more

NCBI tax ID(s) 332524

Special Collections DSMZ JCM CIP

History DSMZ <- JCM <- D. An and X. Dong, Chinese Acad. Sci. (CAS), Beijing; B71 JCM <-- D. An and X. Dong B71. CIP <- 2006, JCM <- D. An strain: B71

Links

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

obligate anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297111

CGMCC 1.5030,JCM 13352,CIP 109388,DSM 27982

@ref 20215

Last LPSN update 2026-05-29 08:30:27

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Actinomycetales

Family Actinomycetaceae

Genus Actinomyces

Species Actinomyces ruminicola

Full scientific name Actinomyces ruminicola An et al. 2006

BacDive ID	Other strains from **Actinomyces ruminicola** (1)	Type strain
175243	A. ruminicola KPR-7B, DSM 116972

Morphology

Cell morphology

@ref	Confidence	Gram stain
125438	93.375
125439	95.96	positive
125438	90.85	positive

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
20246	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215; with strain-specific modifications) Composition: Rumen fluid 150.0 g/l Brain heart infusion 37.0 g/l Distilled water
20246	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)	Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
36054	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
122310	CIP Medium 20	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
20246	positive	growth	37
36054	positive	growth	45
67770	positive	growth	46

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
20246	obligate anaerobe
125439	facultative anaerobe	96.209

Observation

67770

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

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68375	22599 ChEBI	arabinose	-	fermentation	from API ID32STA
68375	29016 ChEBI	arginine	-	hydrolysis	from API ID32STA
68375	17057 ChEBI	cellobiose	-	fermentation	from API ID32STA
68375	15824 ChEBI	D-fructose	+	fermentation	from API ID32STA
68375	17634 ChEBI	D-glucose	-	fermentation	from API ID32STA
68375	16899 ChEBI	D-mannitol	+	fermentation	from API ID32STA
68375	16024 ChEBI	D-mannose	+	fermentation	from API ID32STA
68375	16988 ChEBI	D-ribose	-	fermentation	from API ID32STA
68375	4853 ChEBI	esculin	+	hydrolysis	from API ID32STA
68375	17716 ChEBI	lactose	-	fermentation	from API ID32STA
68375	59640 ChEBI	N-acetylglucosamine	-	fermentation	from API ID32STA
68375	17632 ChEBI	nitrate	-	reduction	from API ID32STA
68375	18257 ChEBI	ornithine	-	degradation	from API ID32STA
68375	16634 ChEBI	raffinose	-	fermentation	from API ID32STA
68375	17992 ChEBI	sucrose	+	fermentation	from API ID32STA
68375	27082 ChEBI	trehalose	-	fermentation	from API ID32STA
68375	32528 ChEBI	turanose	+	fermentation	from API ID32STA
68375	16199 ChEBI	urea	-	hydrolysis	from API ID32STA

Antibiotic resistance

@ref	ChEBI	Group ID	Metabolite	Is resistant	Resistance conc.
68375	28368	0	novobiocin		1.8 µg	from API ID32STA

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68375	15688 ChEBI	acetoin		from API ID32STA

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
68375	15688 ChEBI	acetoin	-	from API ID32STA

Enzymes

@ref	Value	Activity	Ec
68375	alkaline phosphatase	+	3.1.3.1	from API ID32STA
68375	arginine dihydrolase	-	3.5.3.6	from API ID32STA
68375	beta-galactosidase	-	3.2.1.23	from API ID32STA
68375	beta-glucosidase	+	3.2.1.21	from API ID32STA
68375	beta-glucuronidase	-	3.2.1.31	from API ID32STA
68375	L-arginine arylamidase	-		from API ID32STA
68375	ornithine decarboxylase	-	4.1.1.17	from API ID32STA
68375	pyrrolidonyl arylamidase	-	3.4.19.3	from API ID32STA
68375	urease	-	3.5.1.5	from API ID32STA

Pathway annotation

Computationally determined by

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

API ID32STA

@ref	URE	ADH (Arg)	ODC	ESC	GLU	FRU	MNE	MAL	LAC	TRE	MAN	RAF	RIB	CEL	Reduction of nitrateNIT	Acetoin production (Voges Proskauer test)VP	beta GAL	L-arginine arylamidaseArgA	PAL	Pyrrolidonyl arylamidasePyrA	NOVO	SAC	NAG	TUR	ARA	beta GUR
20246	-	-	-	+	-	+	+	+/-	-	-	+	-	-	-	-	-	-	-	+	-	+	+	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Organ	#Rumen

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
20246	cattle rumen, 4-years-old bullock	China	CHN	Asia
67770	Cattle rumen
122310	Animal, Cattle rumen

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
20246	1	Risk group (German classification)
122310	2	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2651870319 annotated assembly for Actinomyces ruminicola DSM 27982	scaffold	GCA_900103885	332524.10	2651870319	332524	70.89

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20246	Actinomyces ruminicola strain B71 16S ribosomal RNA gene, partial sequence	DQ072005	1526		332524

GC content

@ref	GC-content (mol%)	Method
20246	68.06	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: IMG-taxon 2651870319 annotated assembly for Actinomyces ruminicola DSM 27982
NCBI: GCA_900103885

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	96.21	no
125439	gram_stain	BacteriaNetⓘ	positive	95.96	no
125439	motility	BacteriaNetⓘ	no	84.49	no
125439	spore_formation	BacteriaNetⓘ	yes	46.51	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Actinomyces ruminicola strain DSM 27982
PATRIC: 332524.10

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.85	no
125438	anaerobic	anaerobicⓘ	no	71.03	no
125438	spore-forming	spore-formingⓘ	no	85.52	no
125438	aerobic	aerobicⓘ	no	77.36	yes
125438	thermophilic	thermophileⓘ	no	92.64	no
125438	flagellated	motile2+ⓘ	no	93.38	no

Literature

Topic	Title	Authors	Journal	DOI	Year
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 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	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;
#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 .
#122310	Collection of Institut Pasteur ; Curators of the CIP; CIP 109388
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Actinomyces ruminicola (DSM 27982, CGMCC 1.5030, JCM 13352)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API ID32STA

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900103885

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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