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Strain identifier

BacDive ID: 5493

Type strain: Yes

Species: Capnocytophaga canimorsus

Strain Designation: 2340-2-61

Strain history: <- CIP <- CCTM <- ATCC <- R. E. Weaver, CDC <- Carolina State Hlth. Lab., USA; 2340-2-61 <- San Antonio Community Hosp. Upland, CA, USA

NCBI tax ID(s): 28188 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 7966

BacDive-ID: 5493

DSM-Number: 19204

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, human pathogen

description: Capnocytophaga canimorsus 2340-2-61 is a microaerophile, mesophilic human pathogen that was isolated from human male, 17 years old, blood after dog bite.

NCBI tax id

  • NCBI tax id: 28188
  • Matching level: species

strain history: <- CIP <- CCTM <- ATCC <- R. E. Weaver, CDC <- Carolina State Hlth. Lab., USA; 2340-2-61 <- San Antonio Community Hosp. Upland, CA, USA

doi: 10.13145/bacdive5493.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Capnocytophaga
  • species: Capnocytophaga canimorsus
  • full scientific name: Capnocytophaga canimorsus Brenner et al. 1990

@ref: 7966

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Capnocytophaga

species: Capnocytophaga canimorsus

full scientific name: Capnocytophaga canimorsus Brenner et al. 1990

strain designation: 2340-2-61

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 98.719

colony morphology

  • @ref: 7966
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7966COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
7966CAPNOCYTOPHAGA II MEDIUM (DSMZ Medium 779)yeshttps://mediadive.dsmz.de/medium/779Name: CAPNOCYTOPHAGA II MEDIUM (DSMZ Medium 779) Composition: Agar 15.0 g/l Proteose peptone no. 3 10.0 g/l Yeast extract 5.0 g/l Na2HPO4 4.0 g/l Lab-Lemco beef extract 2.4 g/l Glucose 1.5 g/l L-Cysteine HCl x H2O 0.5 g/l Starch 0.5 g/l Horse blood Distilled water
40877MEDIUM 26 - for Gardnerella and Propionibacterium lymphophilumyesDistilled water make up to (1000.000 ml);Horse serum (200.000 ml);Brainheart infusion (37.000 g);Maltose 10 % solution - M0173 (200.000 ml)

culture temp

@refgrowthtypetemperaturerange
7966positivegrowth37mesophilic
40877positivegrowth37mesophilic
60064positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
7966microaerophile
60064microaerophile

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.711

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 98.456

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838027897tryptophan-energy source
6838017632nitrate-reduction
6838029985L-glutamate-degradation
6838016634raffinose-fermentation
6838016024D-mannose-fermentation
6838029016arginine-hydrolysis
6838016199urea-hydrolysis
6837727897tryptophan-energy source
6837716199urea-hydrolysis
6837718257ornithine-degradation
6837717992sucrose-builds acid from
6837717306maltose-builds acid from
6837715824D-fructose+builds acid from
6837717634D-glucose+builds acid from

metabolite production

@refChebi-IDmetaboliteproduction
6838035581indoleno
6837735581indoleno

metabolite tests

@refChebi-IDmetaboliteindole test
6838035581indole-
6837735581indole-

enzymes

@refvalueactivityec
68382alpha-fucosidase+3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68380serine arylamidase+
68380glutamyl-glutamate arylamidase+
68380histidine arylamidase+
68380glycin arylamidase+
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase+
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase+
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase+3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase+3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5
68377tryptophan deaminase-4.1.99.1
68377gamma-glutamyltransferase-2.3.2.2
68377proline-arylamidase-3.4.11.5
68377beta-galactosidase+3.2.1.23
68377alkaline phosphatase+3.1.3.1
68377lipase-
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
68377beta-lactamase-3.5.2.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    60064C14:00.614
    60064C16:02.216
    60064C18:0118
    60064C13:0 iso0.912.612
    60064C13:1 at 12-130.812.931
    60064C15:0 ANTEISO2.614.711
    60064C15:0 ISO68.114.621
    60064C15:0 ISO 3OH3.316.135
    60064C16:0 3OH2.317.52
    60064C17:0 iso0.516.629
    60064C17:0 iso 3OH9.318.161
    60064C18:1 ω9c1.417.769
    60064C18:2 ω6,9c/C18:0 ANTE2.117.724
    60064unknown 13.5664.513.566
    60064unknown 16.5800.516.58
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
60064-+++-++-+-++---+-+-+

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
60064-++-----++---

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
7966---+-++/---+---+--+++++++/-++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
7966human male, 17 years old, blood after dog biteUpland CaliforniaUSAUSANorth America
60064Human blood,dog biteCalifornia,Upland,San AntonioUSAUSANorth America1961

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host#Mammals#Canidae (Dog)
#Host Body Product#Fluids#Blood

taxonmaps

  • @ref: 69479
  • File name: preview.99_4183.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15818;96_589;97_689;98_804;99_4183&stattab=map
  • Last taxonomy: Capnocytophaga canimorsus
  • 16S sequence: X97246
  • Sequence Identity:
  • Total samples: 256
  • aquatic counts: 1
  • animal counts: 254
  • plant counts: 1

Safety information

risk assessment

  • @ref: 7966
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Capnocytophaga canimorsus strain CIP 103936 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceAY6618533555ena28188
20218Capnocytophaga canimorsus 16S ribosomal RNA gene, complete sequenceL146371465ena28188
20218C.canimorsus 16S rRNA geneX972461423ena28188
7966Capnocytophaga canimorsus strain CIP 103936 16S ribosomal RNA gene, partial sequenceAY6430751438ena28188

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Capnocytophaga canimorsus NCTC12242GCA_900460905contigncbi28188
66792Capnocytophaga canimorsus DSM 19204GCA_002797785contigncbi28188
66792Capnocytophaga canimorsus strain DSM 1920428188.15wgspatric28188
66792Capnocytophaga canimorsus strain NCTC1224228188.21wgspatric28188
66792Capnocytophaga canimorsus NCTC 122422814123379draftimg28188
66792Capnocytophaga canimorsus DSM 192042731639179draftimg28188
66792Bradyrhizobium diazoefficiens USDA 122GCA_000473025scaffoldpatric1355477
66792Succinatimonas sp. C6_maxbin.008.faGCA_021629515scaffoldpatric2587468

External links

@ref: 7966

culture collection no.: DSM 19204, ATCC 35979, CCTM La 3498, CCUG 53895, CDC 7120, CIP 103936, NCTC 12242

straininfo link

@refpassport
20218http://www.straininfo.net/strains/745894
20218http://www.straininfo.net/strains/124706
20218http://www.straininfo.net/strains/149656
20218http://www.straininfo.net/strains/703611
20218http://www.straininfo.net/strains/124707
20218http://www.straininfo.net/strains/124709

literature

  • topic: Phylogeny
  • Pubmed-ID: 30118139
  • title: Characterization of three strains of Capnocytophaga canis isolated from patients with sepsis.
  • authors: Suzuki M, Imaoka K, Haga Y, Mohri M, Nogami A, Shimojima Y, Irie Y, Sugimura S, Morikawa S
  • journal: Microbiol Immunol
  • DOI: 10.1111/1348-0421.12642
  • year: 2018
  • mesh: Aged, Aged, 80 and over, Animals, Bacterial Typing Techniques, Base Composition, Benzoquinones/analysis, Bites and Stings/microbiology, Capnocytophaga/*classification/genetics/*isolation & purification/*pathogenicity, Cat Diseases/microbiology, Cats, DNA Gyrase/genetics, DNA, Bacterial/isolation & purification, Dog Diseases/microbiology, Dogs, Female, Genes, Bacterial/genetics, Gram-Negative Bacterial Infections/*microbiology, Humans, Japan, Male, Middle Aged, Multilocus Sequence Typing, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sepsis/*microbiology, Sequence Analysis, DNA, Species Specificity, Whole Genome Sequencing, Zoonoses/microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7966Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19204)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19204
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
40877Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15788
60064Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53895)https://www.ccug.se/strain?id=53895
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68377Automatically annotated from API NH
68380Automatically annotated from API rID32A
68382Automatically annotated from API zym
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)