Name: Capnocytophaga ochracea 25
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5489

Type strain:

Species: Capnocytophaga ochracea

Strain Designation: 25

Culture col. no.: DSM 7272, ATCC 33596, CCUG 15407, LMG 11546

Strain history: <- ATCC <- S.C. Holt, 25 <- S.S. Socransky

NCBI tax ID(s): 1018 (species)

SI-ID 105405

LMG 11546, ATCC 33596, CCUG 15407, DSM 7272, KCTC 3693

Special Collections

DSMZ
CCUG

Other strains from Capnocytophaga ochracea

Section

Capnocytophaga ochracea 25 is an anaerobe, Gram-negative bacterium that was isolated from periodontal lesion.

Gram-negative
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Capnocytophaga*
	Species	**Capnocytophaga ochracea**
	Full Scientific Name (LPSN)	Capnocytophaga ochracea (Prévot et al. 1956) Leadbetter et al. 1982

Synonym

Bacteroides ochraceus

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %96.548

[Ref.: #69480]	Motility	no Confidence in %94.095

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3089]

Culture medium

CAPNOCYTOPHAGA MEDIUM (DSMZ Medium 340)

[Ref.: #3089]

Culture medium growth

[Ref.: #3089]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3089]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #3089]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #3089]

Oxygen tolerance

anaerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %93.208

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68377]	D-fructose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	D-glucose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	maltose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	ornithine ChEBI	-	degradation	* from API NH
[Ref.: #68377]	sucrose ChEBI	+	builds acid from	* from API NH
[Ref.: #68377]	tryptophan ChEBI	-	energy source	* from API NH
[Ref.: #68377]	urea ChEBI	-	hydrolysis	* from API NH

	Metabolite production	Metabolite	Production
[Ref.: #68377]		indole ChEBI	no	* from API NH

	Physiological tests	Metabolite	Indole test
[Ref.: #68377]		indole ChEBI	-	* from API NH

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym, API NH
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68377]	beta-galactosidase	+	3.2.1.23	* from API NH
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #68377]	beta-lactamase	-	3.5.2.6	* from API NH
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68377]	gamma-glutamyltransferase	-	2.3.2.2	* from API NH
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68377]	lipase	-		* from API NH
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68377]	ornithine decarboxylase	-	4.1.1.17	* from API NH
[Ref.: #68377]	proline-arylamidase	+	3.4.11.5	* from API NH
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68377]	tryptophan deaminase	-	4.1.99.1	* from API NH
[Ref.: #68377]	urease	-	3.5.1.5	* from API NH
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #46246]

Fatty acid	Percentage	ECL
C15:0 ISO	52.5	14.621
C17:0 iso 3OH	17.2	18.161
C16:0	5	16
C16:0 3OH	4.6	17.52
C18:2 ω6,9c/C18:0 ANTE	4	17.724
C18:1 ω9c	3.4	17.769
C18:0	2.4	18
C15:0 ISO 3OH	1.9	16.135
unknown 16.580	1.8	16.58
C17:0 iso	1.6	16.629
C15:0 ANTEISO	1.5	14.711
unknown 13.566	1.1	13.566
C15:0	1.1	15
Unidentified	0.5
C14:0	0.5	14
C13:0 iso	0.5	12.612
C16:1 ω7c	0.4	15.819
C16:0 iso	0.3	15.626

API® NH:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Penicillinase productionPEN	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from maltoseMAL	Acid from sucroseSAC	Ornithine decarboxylaseODC	Urease/urea hydrolysisURE	LipaseLIP	Alkaline phosphatasePAL	beta-Galactosidasebeta GAL	Proline arylamidaseProA	gamma-Glutamyl transferaseGGT	Indole productionIND
[Ref.: #46246]	1270	-	+	+	+	+	-	-	-	+	+	+	-	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #46246]	2204	-	+	+	+	-	+	+	+	-	-	+	-	-	-	-	+	-	-	-	-
[Ref.: #46246]	2205	-	+	-	+	-	+	+	+	-	-	+	+	-	-	-	+	-	+	-	-

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

[Ref.: #3089]	Sample type/isolated from	periodontal lesion

[Ref.: #46246]	Sample type/isolated from	Human periodontic lesion
[Ref.: #46246]	Sampling date	1978
[Ref.: #46246]	Geographic location (country and/or sea, region)	Mass.,Boston
[Ref.: #46246]	Country	USA
[Ref.: #46246]	Country ISO 3 Code	USA
[Ref.: #46246]	Continent	North America
* marker position based on {}

Isolation sources categories

#Host Body-Site	#Oral cavity and airways	-
#Host Body-Site	#Other	#Wound

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X67610 (>99% sequence identity) for Capnocytophaga from Microbeatlas

Aquatic Samples	6
Soil Samples	10
Animal Samples	901
Plant Samples	4
Total Samples	921

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

[Ref.: #3089]

Biosafety level

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]	C.ochracea gene for 16S rRNA	X67610	1489	GenBank ENA	1018 tax ID	*
[Ref.: #20218]	Capnocytophaga ochracea 16S ribosomal RNA	L14635	1464	GenBank ENA	1018 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Capnocytophaga ochracea strain FDAARGOS_1550	1018.117	complete	PATRIC	1018 tax ID	*
[Ref.: #66792]	Capnocytophaga ochracea strain FDAARGOS_1550	1018.115	complete	PATRIC	1018 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Capnocytophaga ochracea strain FDAARGOS_1550 PATRIC: 1018.117
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.548	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	82.286	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	93.208	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	85.279	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.284	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	94.095	no

Availability in culture collections External links

[Ref.: #3089]

Culture collection no.

DSM 7272, ATCC 33596, CCUG 15407, LMG 11546

[Ref.: #74976]

SI-ID 105405

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Stress	Synergistic effect on biofilm formation between Fusobacterium nucleatum and Capnocytophaga ochracea.	Okuda T, Okuda K, Kokubu E, Kawana T, Saito A, Ishihara K	Anaerobe	10.1016/j.anaerobe.2012.01.001	2012	*
Enzymology	Characterization of a novel N-acetylneuraminic acid-specific Fusobacterium nucleatum PK1594 adhesin.	Shaniztki B, Ganeshkumar N, Weiss EI	Oral Microbiol Immunol	10.1111/j.1399-302x.1998.tb00750.x	1998	*
Enzymology	Structure of a streptococcal adhesin carbohydrate receptor.	Cassels FJ, Fales HM, London J, Carlson RW, van Halbeek H	J Biol Chem	S0021-9258(18)77277-3	1990	*
Phylogeny	Isolation of a coaggregation-inhibiting cell wall polysaccharide from Streptococcus sanguis H1.	Cassels FJ, London J	J Bacteriol	10.1128/jb.171.7.4019-4025.1989	1989	*
Pathogenicity	Characterization of lectinlike surface components on Capnocytophaga ochracea ATCC 33596 that mediate coaggregation with gram-positive oral bacteria.	Weiss EI, London J, Kolenbrander PE, Kagermeier AS, Andersen RN	Infect Immun	10.1128/iai.55.5.1198-1202.1987	1987	*
	Identification of the rhamnose-sensitive adhesin of Capnocytophaga ochracea ATCC 33596.	Weiss EI, Eli I, Shenitzki B, Smorodinsky N	Arch Oral Biol	10.1016/0003-9969(90)90142-w	1990	*

References

#3089

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7272

#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 )

#46246 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 15407

#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) .

#68377

Automatically annotated from API NH .

#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 .

#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) .

#74976

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-ID105405.1 )

* These data were automatically processed and therefore are not curated

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Capnocytophaga ochracea strain FDAARGOS_1550

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