Actinomyces bowdenii (DSM 28589, 21_37, ERD15F)

Name: Actinomyces bowdenii (DSM 28589, 21_37, ERD15F)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131091

Type strain

Strain Designation 21_37, ERD15F

Culture col. no. DSM 28589 21_37 ERD15F

NCBI tax ID(s) 131109

Special Collections DSMZ Mouse DZIF

History DSMZ <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; ERD15F

Links

Actinomyces bowdenii 21_37 is a microaerophile animal pathogen that was isolated from caecal content; TNF^deltaARE/+ C57BL/6 mouse.

microaerophile animal pathogen genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 407822

DSM 28589

@ref 20215

Last LPSN update 2026-05-29 08:37:32

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Actinomycetales

Family Actinomycetaceae

Genus Actinomyces

Species Actinomyces bowdenii

Full scientific name Actinomyces bowdenii Pascual et al. 1999

BacDive ID	Other strains from **Actinomyces bowdenii** (4)	Type strain
177	A. bowdenii M1327/95/1, M1327/96/1, DSM 15435, CCUG 37421, ... (type strain)
147910	A. bowdenii CCUG 34477
150364	A. bowdenii CCUG 39734
150740	A. bowdenii CCUG 42137

Morphology

Cell morphology

@ref	Confidence	Gram stain
125439	90.904
125439	97.313	positive
125438	92.375
125438	91.228	positive

Colony morphology

22383

Incubation period2-3 days

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
22383	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
22383	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
22383	LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)	Medium recipe at MediaDive	Name: LB (Luria-Bertani) MEDIUM (DSMZ Medium 381) Composition: Agar 20.0 g/l NaCl 10.0 g/l Tryptone 10.0 g/l Yeast extract 5.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
22383	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
22383	microaerophile
125439	facultative anaerobe	96.617

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	formaldehyde oxidation	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	vitamin K metabolism	100	5 of 5
66794	palmitate biosynthesis	95.45	21 of 22
66794	starch degradation	90	9 of 10
66794	myo-inositol biosynthesis	90	9 of 10
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	pentose phosphate pathway	81.82	9 of 11
66794	proline metabolism	81.82	9 of 11
66794	glycogen metabolism	80	4 of 5
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	photosynthesis	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	glycogen biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	purine metabolism	72.34	68 of 94
66794	NAD metabolism	72.22	13 of 18
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	glycolysis	70.59	12 of 17
66794	phenylalanine metabolism	69.23	9 of 13
66794	pyrimidine metabolism	68.89	31 of 45
66794	cyanate degradation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	metabolism of disaccharids	63.64	7 of 11
66794	non-pathway related	63.16	24 of 38
66794	isoleucine metabolism	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	gluconeogenesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	vitamin B1 metabolism	61.54	8 of 13
66794	glutamate and glutamine metabolism	60.71	17 of 28
66794	glycine betaine biosynthesis	60	3 of 5
66794	methylglyoxal degradation	60	3 of 5
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	oxidative phosphorylation	57.14	52 of 91
66794	mevalonate metabolism	57.14	4 of 7
66794	heme metabolism	57.14	8 of 14
66794	citric acid cycle	57.14	8 of 14
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	methionine metabolism	53.85	14 of 26
66794	leucine metabolism	53.85	7 of 13
66794	degradation of pentoses	53.57	15 of 28
66794	flavin biosynthesis	53.33	8 of 15
66794	lysine metabolism	52.38	22 of 42
66794	alanine metabolism	51.72	15 of 29
66794	pantothenate biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	Entner Doudoroff pathway	50	5 of 10
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	butanoate fermentation	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	cysteine metabolism	50	9 of 18
66794	glycine metabolism	50	5 of 10
66794	adipate degradation	50	1 of 2
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	arginine metabolism	45.83	11 of 24
66794	vitamin B6 metabolism	45.45	5 of 11
66794	d-xylose degradation	45.45	5 of 11
66794	tryptophan metabolism	44.74	17 of 38
66794	lipid A biosynthesis	44.44	4 of 9
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	glutathione metabolism	42.86	6 of 14
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	bacilysin biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	propionate fermentation	40	4 of 10
66794	D-cycloserine biosynthesis	40	2 of 5
66794	lipid metabolism	38.71	12 of 31
66794	urea cycle	38.46	5 of 13
66794	tyrosine metabolism	35.71	5 of 14
66794	enterobactin biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	octane oxidation	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	degradation of sugar alcohols	31.25	5 of 16
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	degradation of hexoses	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	lactate fermentation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	degradation of sugar acids	24	6 of 25
66794	sulfate reduction	23.08	3 of 13
66794	nitrate assimilation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Muridae (Mouse/Rat)
#Host Body-Site	#Gastrointestinal tract	#Large intestine
#Host Body Product	#Gastrointestinal tract	#Caecal content

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
22383	caecal content; TNF^deltaARE/+ C57BL/6 mouse	Freising	Germany	DEU	Europe

Interaction and safety

Risk assessment

@ref	Pathogenicity animal	Biosafety level	Biosafety level comment
22383		2	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM2462333v1 assembly for Actinomyces bowdenii DSM 28589	contig	GCA_024623335	131109.8	131109	64.64

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22383	Actinomyces sp. ERD15F 16S ribosomal RNA gene, partial sequence	KR364730	1403		1796608

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM2462333v1 assembly for Actinomyces bowdenii DSM 28589
NCBI: GCA_024623335

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	96.62	no
125439	motility	BacteriaNetⓘ	no	90.90	no
125439	gram_stain	BacteriaNetⓘ	positive	97.31	no
125439	spore_formation	BacteriaNetⓘ	no	70.15	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Actinomyces bowdenii DSM 28589
NCBI: GCA_024623335.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.23	no
125438	anaerobic	anaerobicⓘ	no	79.27	yes
125438	aerobic	aerobicⓘ	no	81.73	no
125438	spore-forming	spore-formingⓘ	no	83.13	no
125438	thermophilic	thermophileⓘ	no	92.65	yes
125438	flagellated	motile2+ⓘ	no	92.38	no

Literature

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 )
#22383	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28589
#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 )
#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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