Name: Capnocytophaga cynodegmi 79120329
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5494

Type strain:

Species: Capnocytophaga cynodegmi

Strain Designation: 79120329, E6447

Culture col. no.: MCCM 00247, LMG 11513, MCCM 00265, LMG 11540, DSM 19736, ATCC 49044, CCUG 24742, CIP 103937, NCTC 12243

Strain history: <- CIP <- ATCC <- R. E. Weaver, CDC; strain 79120329, strain E6447 <- Virginia State Hlth. Lab., USA <- F. J. Marsik, Clinical Lab. Univ., Virginia Hosp., USA

NCBI tax ID(s): 926551 (strain), 28189 (species)

Other strains from Capnocytophaga cynodegmi

C. cynodegmi CCUG 19954
C. cynodegmi CCUG 30624, MCCM 00262, LMG 11538
C. cynodegmi CCUG 30625, MCCM 00263, LMG 11539
C. cynodegmi CCUG 38690
C. cynodegmi CCUG 54501

Section

Capnocytophaga cynodegmi 79120329 is a microaerophile, mesophilic human pathogen that was isolated from mouth of a dog.

human pathogen
mesophilic
microaerophile
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Capnocytophaga*
	Species	**Capnocytophaga cynodegmi**
	Full Scientific Name (PNU)	Capnocytophaga cynodegmi Brenner et al. 1990

Information on morphological and physiological properties Morphology

[Ref.: #8133]

Incubation period

2-3 days

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8133]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #8133]

Culture medium growth

[Ref.: #8133]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #8133]

Culture medium composition

expand / minimize

[Ref.: #34432]

Culture medium

MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and Neisseria

[Ref.: #34432]

Culture medium growth

[Ref.: #34432]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #8133]			growth	37 °C
[Ref.: #34432]			growth	37 °C

[Ref.: #8133]	Temperature range	mesophilic
[Ref.: #34432]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8133]

Oxygen tolerance

microaerophile

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #48031]

Fatty acid	Percentage	ECL
C15:0 ISO	59.1	14.621
C17:0 iso 3OH	10.9	18.161
unknown 13.566	4.8	13.566
C16:0	4.4	16
C16:0 3OH	3.5	17.52
C15:0 ANTEISO	3.1	14.711
C15:0 ISO 3OH	3	16.135
C18:2 ω6,9c/C18:0 ANTE	2.7	17.724
C18:1 ω9c	1.4	17.769
C14:0	1.4	14
C13:1 at 12-13	1.3	12.931
C17:0 iso	1.2	16.629
C18:0	1	18
unknown 16.580	1	16.58
C13:0 iso	0.8	12.612
C16:0 iso	0.5	15.626

Metadata FA analysis

Reference

[Ref.: #48031]

Fatty acid	Percentage	ECL
C15:0 ISO	68.3	14.621
C17:0 iso 3OH	10.8	18.161
C15:0 ISO 3OH	3.8	16.135
unknown 13.566	3.5	13.566
C15:0 ANTEISO	2.6	14.711
C16:0	1.9	16
C14:0	1.7	14
C18:2 ω6,9c/C18:0 ANTE	1.6	17.724
C18:1 ω9c	1.4	17.769
C13:1 at 12-13	1.3	12.931
C13:0 iso	1	12.612
C18:0	0.6	18
C17:0 iso	0.5	16.629
C18:1 2OH	0.4	19.088
unknown 16.580	0.4	16.58
C16:1 ω7c	0.2	15.819

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	lipid A biosynthesis	77.78	7 of 9
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	purine metabolism	69.15	65 of 94
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	lipid metabolism	54.84	17 of 31
[Ref.: #66794]	glutamate and glutamine metabolism	53.57	15 of 28
[Ref.: #66794]	non-pathway related	52.63	20 of 38
[Ref.: #66794]	alanine metabolism	51.72	15 of 29
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	oxidative phosphorylation	48.35	44 of 91
[Ref.: #66794]	phenylalanine metabolism	46.15	6 of 13
[Ref.: #66794]	pentose phosphate pathway	45.45	5 of 11
[Ref.: #66794]	degradation of sugar acids	44	11 of 25
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	isoprenoid biosynthesis	42.31	11 of 26
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	lysine metabolism	40.48	17 of 42
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	O-antigen biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	degradation of pentoses	39.29	11 of 28
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	leucine metabolism	38.46	5 of 13
[Ref.: #66794]	vitamin B1 metabolism	38.46	5 of 13
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	tryptophan metabolism	36.84	14 of 38
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	formaldehyde oxidation	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	degradation of sugar alcohols	31.25	5 of 16
[Ref.: #66794]	methionine metabolism	30.77	8 of 26
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	glycine metabolism	30	3 of 10
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	propanol degradation	28.57	2 of 7
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	28.57	2 of 7
[Ref.: #66794]	histidine metabolism	27.59	8 of 29
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	arginine metabolism	25	6 of 24
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	urea cycle	23.08	3 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	valine metabolism	22.22	2 of 9
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
		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.: #8133]	Sample type/isolated from	mouth of a dog
[Ref.: #8133]	Geographic location (country and/or sea, region)	Virginia
[Ref.: #8133]	Country	USA
[Ref.: #8133]	Country ISO 3 Code	USA
[Ref.: #8133]	Continent	North America

[Ref.: #48031]	Sample type/isolated from	Dog mouth
[Ref.: #48031]	Sampling date	1979
[Ref.: #48031]	Geographic location (country and/or sea, region)	Virginia
[Ref.: #48031]	Country	USA
[Ref.: #48031]	Country ISO 3 Code	USA
[Ref.: #48031]	Continent	North America
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Canidae (Dog)
#Host Body-Site	#Oral cavity and airways	#Mouth

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X97245 (>99% sequence identity) for Capnocytophaga cynodegmi from Microbeatlas

Aquatic Samples	2
Soil Samples	19
Animal Samples	1891
Plant Samples	1
Total Samples	1913

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

[Ref.: #8133]	Pathogenicity (human)	yes
[Ref.: #8133]	Pathogenicity (animal)	yes
[Ref.: #8133]	Biosafety level	2	Risk group (German classification) According to TRBA 466

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.: #20218]	Capnocytophaga cynodegmi strain CIP 103937 16S ribosomal RNA gene, partial sequence	AY643076	1438	ENA	926551 tax ID	*
[Ref.: #20218]	Capnocytophaga cynodegmi 16S ribosomal RNA	L14638	1463	ENA	28189 tax ID	*
[Ref.: #20218]	C.cynodegmi 16S rRNA gene	X97245	1427	ENA	28189 tax ID	*
[Ref.: #8133]	Capnocytophaga cynodegmi strain CIP 103937 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	AY661854	3547	ENA	926551 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Capnocytophaga cynodegmi DSM 19736 E6447	GCA_000379185	scaffold	GenBank	926551 tax ID	*
[Ref.: #66792]	Capnocytophaga cynodegmi Ccyn_ATCC49044	28189.4	wgs	PATRIC	28189 tax ID	*
[Ref.: #66792]	Capnocytophaga cynodegmi DSM 19736	926551.3	wgs	PATRIC	926551 tax ID	*
[Ref.: #66792]	Capnocytophaga cynodegmi E6447, DSM 19736	2513237123	draft	JGI IMG/M	926551 tax ID	*
[Ref.: #66792]	Staphylococcus cohnii SC7	GCA_014884125	contig	PATRIC	29382 tax ID	*
[Ref.: #66792]	Alloprevotella sp. RGIG3372	GCA_017446765	contig	PATRIC	1872471 tax ID	*

[Ref.: #8133]

GC-content

34 mol%

Availability in culture collections External links

[Ref.: #8133]

Culture collection no.

MCCM 00247, LMG 11513, MCCM 00265, LMG 11540, DSM 19736, ATCC 49044, CCUG 24742, CIP 103937, NCTC 12243

[Ref.: #20218]

Associated Passport(s) in StrainInfo

745955, 31039, 31040, 124920, 342626

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Characterization of three strains of Capnocytophaga canis isolated from patients with sepsis.	Suzuki M, Imaoka K, Haga Y, Mohri M, Nogami A, Shimojima Y, Irie Y, Sugimura S, Morikawa S	Microbiol Immunol	10.1111/1348-0421.12642	2018	*

References

#8133

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19736

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#34432 ; Curators of the CIP;
#48031 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 24742

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 )

#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) .

* These data were automatically processed and therefore are not curated

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