Dysgonomonas capnocytophagoides (DSM 22835, CCUG 17996, CIP 107043)

Name: Dysgonomonas capnocytophagoides (DSM 22835, CCUG 17996, CIP 107043)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 12516

Type strain

Culture col. no. DSM 22835 CCUG 17996 CIP 107043 LMG 11519 CDC F9047 1 more

NCBI tax ID(s) 1121485 45254

Special Collections DSMZ CCUG JCM CIP

History <- CIP; CIP 107043 <- CCUG <- W. Frederiksen, SSI, Copenhagen, Denmark CCUG 17996 <-- W. Frederiksen SSI Fsk10268. CIP <- 2001, CCUG <- 1985, W. Frederiksen, SSI, Copenhagen, Denmark

Links

Dysgonomonas capnocytophagoides DSM 22835 is an anaerobe, mesophilic, Gram-negative prokaryote that was isolated from human, cutaneous abscess.

Gram-negative rod-shaped anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 13931

LMG 11519,CCUG 17996,CIP 107043,CCUG 43458,JCM 16697,DSM 22835

@ref 20215

Last LPSN update 2025-12-16 09:49:52

Domain Pseudomonadati

Phylum Bacteroidota

Class Bacteroidia

Order Bacteroidales

Family Dysgonomonadaceae

Genus Dysgonomonas

Species Dysgonomonas capnocytophagoides

Full scientific name Dysgonomonas capnocytophagoides Hofstad et al. 2000

BacDive ID	Other strains from **Dysgonomonas capnocytophagoides** (5)	Type strain
151077	D. capnocytophagoides CCUG 43221 A, CIP 105590
152240	D. capnocytophagoides CCUG 46191
152241	D. capnocytophagoides CCUG 46192
152393	D. capnocytophagoides CCUG 46664
157150	D. capnocytophagoides CCUG 69798

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
117152	negative	rod-shaped
125439	negative			99.9

Colony morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
16540	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
16540	CHOCOLATE AGAR (DSMZ Medium 429b)	Medium recipe at MediaDive	Name: CHOCOLATE AGAR (DSMZ Medium 429b) Composition: Horse blood 100.0 g/l Sheep blood 100.0 g/l Columbia agar base
39642	MEDIUM 6 - Columbia agar with 10 % horse blood		Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
117152	CIP Medium 6	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16540	positive	growth	37	mesophilic
39642	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic
117152	positive	growth	25-37	mesophilic
117152	negative	growth	15
117152	negative	growth	41
117152	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
16540	anaerobe
117152	facultative anaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.7

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	+	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
68367	17057 ChEBI	cellobiose	+	builds acid from	from API 20A
68371	17108 ChEBI	D-arabinose	+	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68377	15824 ChEBI	D-fructose	+	builds acid from	from API NH
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	+	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68377	17634 ChEBI	D-glucose	+	builds acid from	from API NH
68367	17634 ChEBI	D-glucose	+	builds acid from	from API 20A
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68367	16899 ChEBI	D-mannitol	+	builds acid from	from API 20A
68380	16024 ChEBI	D-mannose	+	fermentation	from API rID32A
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68367	16024 ChEBI	D-mannose	+	builds acid from	from API 20A
68371	16988 ChEBI	D-ribose	+	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68367	65327 ChEBI	D-xylose	+	builds acid from	from API 20A
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
117152	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68367	4853 ChEBI	esculin	+	hydrolysis	from API 20A
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68367	5291 ChEBI	gelatin	-	hydrolysis	from API 20A
68371	28066 ChEBI	gentiobiose	+	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	+	builds acid from	from API 50CH acid
68367	17754 ChEBI	glycerol	+	builds acid from	from API 20A
68371	28087 ChEBI	glycogen	+	builds acid from	from API 50CH acid
117152	606565 ChEBI	hippurate	+	hydrolysis
68371	15443 ChEBI	inulin	+	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	+	builds acid from	from API 50CH acid
68367	30849 ChEBI	L-arabinose	+	builds acid from	from API 20A
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	+	builds acid from	from API 50CH acid
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
68371	62345 ChEBI	L-rhamnose	+	builds acid from	from API 50CH acid
68367	62345 ChEBI	L-rhamnose	+	builds acid from	from API 20A
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	+	builds acid from	from API 50CH acid
68367	17716 ChEBI	lactose	+	builds acid from	from API 20A
68377	17306 ChEBI	maltose	+	builds acid from	from API NH
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
68367	17306 ChEBI	maltose	+	builds acid from	from API 20A
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68367	6731 ChEBI	melezitose	+	builds acid from	from API 20A
68371	28053 ChEBI	melibiose	+	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
117152	17632 ChEBI	nitrate	-	reduction
117152	17632 ChEBI	nitrate	+	respiration
117152	16301 ChEBI	nitrite	-	reduction
68377	18257 ChEBI	ornithine	-	degradation	from API NH
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	+	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	+	builds acid from	from API 50CH acid
68380	16634 ChEBI	raffinose	+	fermentation	from API rID32A
68367	16634 ChEBI	raffinose	+	builds acid from	from API 20A
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
68367	17814 ChEBI	salicin	+	builds acid from	from API 20A
68367	30911 ChEBI	sorbitol	+	builds acid from	from API 20A
68371	28017 ChEBI	starch	+	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
68367	17992 ChEBI	sucrose	+	builds acid from	from API 20A
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68367	27082 ChEBI	trehalose	+	builds acid from	from API 20A
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68367	27897 ChEBI	tryptophan	-	energy source	from API 20A
68371	32528 ChEBI	turanose	+	builds acid from	from API 50CH acid
68377	16199 ChEBI	urea	-	hydrolysis	from API NH
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A
68367	16199 ChEBI	urea	-	hydrolysis	from API 20A
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
117152	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite
68380	35581 ChEBI	indole	from API rID32A
117152	35581 ChEBI	indole
68367	35581 ChEBI	indole	from API 20A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	-	from API rID32A
68367	35581 ChEBI	indole	-	from API 20A

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
68380	alanine arylamidase	+	3.4.11.2	from API rID32A
117152	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68380	alkaline phosphatase	+	3.1.3.1	from API rID32A
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
68382	alpha-galactosidase	+	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68380	arginine dihydrolase	-	3.5.3.6	from API rID32A
68382	beta-galactosidase	+	3.2.1.23	from API zym
117152	beta-galactosidase	+	3.2.1.23
68380	beta-galactosidase	+	3.2.1.23	from API rID32A
68377	beta-galactosidase	-	3.2.1.23	from API NH
68380	beta-Galactosidase 6-phosphate	+		from API rID32A
68382	beta-glucosidase	+	3.2.1.21	from API zym
68380	beta-glucosidase	+	3.2.1.21	from API rID32A
68367	beta-glucosidase	+	3.2.1.21	from API 20A
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
68377	beta-lactamase	+	3.5.2.6	from API NH
117152	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
117152	gamma-glutamyltransferase	+	2.3.2.2
68367	gelatinase	-		from API 20A
68380	glutamate decarboxylase	-	4.1.1.15	from API rID32A
68380	glutamyl-glutamate arylamidase	+		from API rID32A
68380	glycin arylamidase	-		from API rID32A
68380	histidine arylamidase	-		from API rID32A
68380	L-arginine arylamidase	-		from API rID32A
68382	leucine arylamidase	-	3.4.11.1	from API zym
68380	leucine arylamidase	-	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	+	3.4.11.1	from API rID32A
68382	lipase (C 14)	-		from API zym
117152	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68380	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32A
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
117152	ornithine decarboxylase	-	4.1.1.17
68377	ornithine decarboxylase	-	4.1.1.17	from API NH
117152	oxidase	-
68380	phenylalanine arylamidase	-		from API rID32A
68380	proline-arylamidase	-	3.4.11.5	from API rID32A
68380	pyrrolidonyl arylamidase	-	3.4.19.3	from API rID32A
68380	serine arylamidase	-		from API rID32A
68382	trypsin	-	3.4.21.4	from API zym
68380	tryptophan deaminase	-	4.1.99.1	from API rID32A
68380	tyrosine arylamidase	-		from API rID32A
117152	urease	-	3.5.1.5
68380	urease	-	3.5.1.5	from API rID32A
68377	urease	-	3.5.1.5	from API NH
68367	urease	-	3.5.1.5	from API 20A
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ppGpp biosynthesis	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	acetate fermentation	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	glycogen metabolism	100	5 of 5
66794	vitamin B1 metabolism	100	13 of 13
66794	suberin monomers biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	ceramide biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	palmitate biosynthesis	95.45	21 of 22
66794	starch degradation	90	9 of 10
66794	lipid A biosynthesis	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	propanol degradation	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	vitamin B6 metabolism	81.82	9 of 11
66794	pentose phosphate pathway	81.82	9 of 11
66794	flavin biosynthesis	80	12 of 15
66794	threonine metabolism	80	8 of 10
66794	vitamin K metabolism	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	valine metabolism	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	chorismate metabolism	77.78	7 of 9
66794	glycogen biosynthesis	75	3 of 4
66794	biotin biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	gluconeogenesis	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	pyrimidine metabolism	73.33	33 of 45
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	glycolysis	70.59	12 of 17
66794	propionate fermentation	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	acetoin degradation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	enterobactin biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	peptidoglycan biosynthesis	66.67	10 of 15
66794	d-mannose degradation	66.67	6 of 9
66794	formaldehyde oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	purine metabolism	65.96	62 of 94
66794	degradation of pentoses	64.29	18 of 28
66794	glutamate and glutamine metabolism	64.29	18 of 28
66794	heme metabolism	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	degradation of sugar alcohols	62.5	10 of 16
66794	ketogluconate metabolism	62.5	5 of 8
66794	vitamin B12 metabolism	61.76	21 of 34
66794	leucine metabolism	61.54	8 of 13
66794	degradation of hexoses	61.11	11 of 18
66794	glycine betaine biosynthesis	60	3 of 5
66794	cellulose degradation	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	CO2 fixation in Crenarchaeota	55.56	5 of 9
66794	non-pathway related	55.26	21 of 38
66794	metabolism of disaccharids	54.55	6 of 11
66794	methionine metabolism	53.85	14 of 26
66794	oxidative phosphorylation	52.75	48 of 91
66794	tryptophan metabolism	52.63	20 of 38
66794	histidine metabolism	51.72	15 of 29
66794	alanine metabolism	51.72	15 of 29
66794	lipid metabolism	51.61	16 of 31
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	myo-inositol biosynthesis	50	5 of 10
66794	pantothenate biosynthesis	50	3 of 6
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	butanoate fermentation	50	2 of 4
66794	coenzyme M biosynthesis	50	5 of 10
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	cysteine metabolism	50	9 of 18
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	degradation of sugar acids	48	12 of 25
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	sulfate reduction	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	lysine metabolism	45.24	19 of 42
66794	nitrate assimilation	44.44	4 of 9
66794	polyamine pathway	43.48	10 of 23
66794	arginine metabolism	41.67	10 of 24
66794	O-antigen biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	factor 420 biosynthesis	40	2 of 5
66794	glutathione metabolism	35.71	5 of 14
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	molybdenum cofactor biosynthesis	33.33	3 of 9
66794	ascorbate metabolism	31.82	7 of 22
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	urea cycle	30.77	4 of 13
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	tyrosine metabolism	28.57	4 of 14
66794	carnitine metabolism	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	arachidonic acid metabolism	22.22	4 of 18

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
117152	-	+	+	+	-	-	-	-	-	-	+	+	+	+	-	+	+	-	-	-

API 20A

@ref	IND	URE	GLU	MAN	LAC	SAC	MAL	SAL	XYL	ARA	GEL	ESC	GLY	CEL	MNE	MLZ	RAF	SOR	RHA	TRE	CAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
16540	-	-	+	+	+	+	+	+	+	+	-	+	+	+	+	+	+	+	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
117152	not determinedn.d.	+	-	+	+	+	-	-	-	-	+	+	+	+	-	+	-	-	-	-	-	-	+	+	+	+	+	+	+	+	+	+	-	+	-	+	+	+	-	+	+	-	-	-	+	-	-	-	-	+

API NH

@ref	PEN	GLU	FRU	MAL	SAC	ODC	URE	LIP	PAL	beta GAL	ProA	GGT	IND
16540	+	+	+	+	-	-	-	+	-	-	+	-	+
16540	+	+	+	+	+	-	-	-	+	-	-	+	-

API rID32A

@ref	URE	ADH (Arg)	alpha GAL	beta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha GLU	beta GLU	alpha ARA	beta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	MNE	RAF	GDC	alpha FUC	Reduction of nitrateNIT	IND	PAL	L-arginine arylamidaseArgA	ProA	LGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	PyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
65646	-	-	+	+	+	+	+	+	-	-	+	+	-	-	-	-	+	-	-	+	-	-	-	-	+	-	-	+	-
16540	-	-	-	+	+	+/-	+	-	-	-	+	+	-	-	-	-	+	-	-	+	-	-	-	-	+	-	-	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body-Site	#Other	#Abscess
#Host Body-Site	#Organ	#Skin, Nail, Hair

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent	Isolation date
16540	human, cutaneous abscess	Denmark	DNK	Europe
67770	Human clinical specimen
117152	Human, Cutaneous abscess	Denmark	DNK	Europe	1985

Taxonmaps

69479

Global distribution of 16S sequence U41355 (>99% sequence identity) for Dysgonomonas capnocytophagoides subclade from Microbeatlas

Aquatic Samples	1143
Soil Samples	490
Animal Samples	5028
Plant Samples	247
Total Samples	6908

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16540	2	Risk group (German classification) According to TRBA 466
117152	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM42648v1 assembly for Dysgonomonas capnocytophagoides DSM 22835	scaffold	GCA_000426485	1121485.3	2526164513	1121485	71.28

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16540	CDC Group DF-3 16S LMG 11519 ribosomal RNA gene, partial sequence	U41355	1471		45254
67770	Dysgonomonas capnocytophagoides gene for 16S ribosomal RNA, partial sequence, strin: JCM 16697	AB548674	1491		45254

GC content

@ref	GC-content (mol%)
16540	38.0
67770	38

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Dysgonomonas capnocytophagoides DSM 22835
NCBI: GCA_000426485

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.70	no
125439	motility	BacteriaNetⓘ	no	69.50	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	69.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Dysgonomonas capnocytophagoides DSM 22835
PATRIC: 1121485.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	89.82	no
125438	anaerobic	anaerobicⓘ	yes	61.07	no
125438	spore-forming	spore-formingⓘ	no	88.48	no
125438	aerobic	aerobicⓘ	no	80.54	no
125438	thermophilic	thermophileⓘ	no	97.45	no
125438	flagellated	motile2+ⓘ	no	88.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genome sequence of Dysgonomonas hofstadii DSM 104969^T isolated from a human abdominal surgical wound.	Torres VJ, Mohanty R, Bernal G, Pukall R, Goker M, Woyke T, Seshadri R, Lin W-J.	Microbiol Resour Announc	10.1128/mra.01294-24	2025
Genetics	Dysgonomonas mossii Strain Shenzhen WH 0221, a New Member of the Genus Dysgonomonas Isolated from the Blood of a Patient with Diabetic Nephropathy, Exhibits Multiple Antibiotic Resistance.	Gao X, Wei J, Hao T, Yang T, Han X, Li M, Li X, Xiong D, Zhang X.	Microbiol Spectr	10.1128/spectrum.02381-21	2022
Phylogeny	Bamboo lignocellulose degradation by gut symbiotic microbiota of the bamboo snout beetle Cyrtotrachelus buqueti.	Luo C, Li Y, Chen Y, Fu C, Long W, Xiao X, Liao H, Yang Y.	Biotechnol Biofuels	10.1186/s13068-019-1411-1	2019
Genetics	A Combined Metagenomics and Metatranscriptomics Approach to Unravel Costa Rican Cocoa Box Fermentation Processes Reveals Yet Unreported Microbial Species and Functionalities.	Verce M, Schoonejans J, Hernandez Aguirre C, Molina-Bravo R, De Vuyst L, Weckx S.	Front Microbiol	10.3389/fmicb.2021.641185	2021
Metabolism	Evidence for natural horizontal transfer of the pcpB gene in the evolution of polychlorophenol-degrading sphingomonads.	Tiirola MA, Wang H, Paulin L, Kulomaa MS.	Appl Environ Microbiol	10.1128/aem.68.9.4495-4501.2002	2002
Biotechnology	Evaluating food safety of traditionally fermented kocho: microbial profiling through classical methods and PacBio SMRT sequencing technology.	Andeta AF, Lema NK, Debel GL, Misganaw FW, Ifa AC.	Antonie Van Leeuwenhoek	10.1007/s10482-025-02134-4	2025
Genetics	Integration of Macrogenomics and Metabolomics: Comprehensive Insights into the Effects of In Vitro Fermentation with Human Milk Exosomes on Infant Gut Microbiota.	Wang K, Han X, Zhou W, Zhai J, Yuan Z, Li A, Du P.	J Agric Food Chem	10.1021/acs.jafc.4c09971	2025
Genetics	A fatal case of peritonitis caused by Dysgonomonas capnocytophagoides harboring the novel metallo-beta-lactamase gene bla_DYB-1.	Imai K, Kodana M, Omachi R, Inoue T, Okada H, Maeda T.	Int J Infect Dis	10.1016/j.ijid.2024.107174	2024
	Dysgonomonas capnocytophagoides Bacteremia in a Patient With Stage IV Colon Adenocarcinoma.	Schall SE, Blyth DM, McCarthy SL.	Cureus	10.7759/cureus.16381	2021
	An exploratory study of a multi-species probiotic formulation and markers of health in a real-world oncological cohort in the time of covid.	Thomsen M, Vemuri R, Huygens F, Clarke S, Vitetta L.	Inflammopharmacology	10.1007/s10787-024-01503-1	2024
	Exogenous and endogenous microbiomes of wild-caught Phormia regina (Diptera: Calliphoridae) flies from a suburban farm by 16S rRNA gene sequencing.	Deguenon JM, Travanty N, Zhu J, Carr A, Denning S, Reiskind MH, Watson DW, Michael Roe R, Ponnusamy L.	Sci Rep	10.1038/s41598-019-56733-z	2019
Metabolism	Bacterial community structure and predicted alginate metabolic pathway in an alginate-degrading bacterial consortium.	Kita A, Miura T, Kawata S, Yamaguchi T, Okamura Y, Aki T, Matsumura Y, Tajima T, Kato J, Nishio N, Nakashimada Y.	J Biosci Bioeng	10.1016/j.jbiosc.2015.06.014	2016
Genetics	Bacterial community changes in strawberry fruits (Fragaria × ananassa variety "Monterey") from farm field to retail market stands, an indicator of postharvest contamination.	Tenea GN, Reyes P.	Front Microbiol	10.3389/fmicb.2024.1348316	2024
	Characterization and antimicrobial susceptibility of Dysgonomonas capnocytophagoides isolated from human blood sample.	Hironaga M, Yamane K, Inaba M, Haga Y, Arakawa Y.	Jpn J Infect Dis		2008
Phylogeny	Evaluation of the Bruker MALDI Biotyper for Identification of Fastidious Gram-Negative Rods.	Schulthess B, Bloemberg GV, Zbinden A, Mouttet F, Zbinden R, Bottger EC, Hombach M.	J Clin Microbiol	10.1128/jcm.03107-15	2016
Metabolism	Succession of lignocellulolytic bacterial consortia bred anaerobically from lake sediment.	Korenblum E, Jimenez DJ, van Elsas JD.	Microb Biotechnol	10.1111/1751-7915.12338	2016
Enzymology	Dysgonomonas capnocytophagoides bacteraemia in a neutropenic patient treated for acute myeloid leukaemia.	Hansen PS, Jensen TG, Gahrn-Hansen B.	APMIS	10.1111/j.1600-0463.2005.apm1130313.x	2005
Metabolism	Distribution and evolution of nitrogen fixation genes in the phylum Bacteroidetes.	Inoue J, Oshima K, Suda W, Sakamoto M, Iino T, Noda S, Hongoh Y, Hattori M, Ohkuma M.	Microbes Environ	10.1264/jsme2.me14142	2015
Phylogeny	Bacterial communities in the gut of wild and mass-reared Zeugodacus cucurbitae and Bactrocera dorsalis revealed by metagenomic sequencing.	Hadapad AB, Shettigar SKG, Hire RS.	BMC Microbiol	10.1186/s12866-019-1647-8	2019
Metabolism	Nitrogenase diversity and activity in the gastrointestinal tract of the wood-eating catfish Panaque nigrolineatus.	McDonald R, Zhang F, Watts JE, Schreier HJ.	ISME J	10.1038/ismej.2015.65	2015
Enzymology	Microbial Diversity of Source and Point-of-Use Water in Rural Haiti - A Pyrosequencing-Based Metagenomic Survey.	Mukherjee N, Bartelli D, Patra C, Chauhan BV, Dowd SE, Banerjee P.	PLoS One	10.1371/journal.pone.0167353	2016
Phylogeny	Characterisation of source-separated household waste intended for composting.	Sundberg C, Franke-Whittle IH, Kauppi S, Yu D, Romantschuk M, Insam H, Jonsson H.	Bioresour Technol	10.1016/j.biortech.2010.10.075	2011
Phylogeny	Generation of electricity and analysis of microbial communities in wheat straw biomass-powered microbial fuel cells.	Zhang Y, Min B, Huang L, Angelidaki I.	Appl Environ Microbiol	10.1128/aem.02240-08	2009
	Microbial communities mediating algal detritus turnover under anaerobic conditions.	Morrison JM, Murphy CL, Baker K, Zamor RM, Nikolai SJ, Wilder S, Elshahed MS, Youssef NH.	PeerJ	10.7717/peerj.2803	2017
	Microbiome assembly across multiple body sites in low-birthweight infants.	Costello EK, Carlisle EM, Bik EM, Morowitz MJ, Relman DA.	mBio	10.1128/mbio.00782-13	2013
	Enriched Iron(III)-Reducing Bacterial Communities are Shaped by Carbon Substrate and Iron Oxide Mineralogy.	Lentini CJ, Wankel SD, Hansel CM.	Front Microbiol	10.3389/fmicb.2012.00404	2012
	Assessing hydrocarbon degradation capacity of Isoptericola peretonis sp. nov. and related species: a comparative study.	Vidal-Verdu A, Latorre-Perez A, Pascual J, Manes-Collado R, Nevot-Terraes A, Porcar M.	Front Microbiol	10.3389/fmicb.2025.1471121	2025
Phylogeny	Pseudomonas panipatensis sp. nov., isolated from an oil-contaminated site.	Gupta SK, Kumari R, Prakash O, Lal R.	Int J Syst Evol Microbiol	10.1099/ijs.0.65401-0	2008
Phylogeny	Dysgonomonas mossii sp. nov., from human sources.	Lawson PA, Falsen E, Inganas E, Weyant RS, Collins MD.	Syst Appl Microbiol	10.1078/0723-2020-00107	2002
Phylogeny	Dysgonomonas gen. nov. to accommodate Dysgonomonas gadei sp. nov., an organism isolated from a human gall bladder, and Dysgonomonas capnocytophagoides (formerly CDC group DF-3).	Hofstad T, Olsen I, Eribe ER, Falsen E, Collins MD, Lawson PA.	Int J Syst Evol Microbiol	10.1099/00207713-50-6-2189	2000
Phylogeny	Dysgonomonas alginatilytica sp. nov., an alginate-degrading bacterium isolated from a microbial consortium.	Kita A, Miura T, Okamura Y, Aki T, Matsumura Y, Tajima T, Kato J, Nakashimada Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.000459	2015
Phylogeny	Dysgonomonas macrotermitis sp. nov., isolated from the hindgut of a fungus-growing termite.	Yang YJ, Zhang N, Ji SQ, Lan X, Zhang KD, Shen YL, Li FL, Ni JF	Int J Syst Evol Microbiol	10.1099/ijs.0.061739-0	2014

References

#16540	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22835
#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 )
#39642	; Curators of the CIP;
#65646	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 17996
#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;
#68367	Automatically annotated from API 20A .
#68371	Automatically annotated from API 50CH acid .
#68377	Automatically annotated from API NH .
#68380	Automatically annotated from API rID32A .
#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 .
#117152	Collection of Institut Pasteur ; Curators of the CIP; CIP 107043
#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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Dysgonomonas capnocytophagoides (DSM 22835, CCUG 17996, CIP 107043)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

API 20A

API 50CHac

API NH

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000426485

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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