Strain identifier
BacDive ID: 5493
Type strain:
Species: Capnocytophaga canimorsus
Strain Designation: 2340-2-61, 7120
Strain history: CIP <- 1994, CCTM <- 1993, ATCC <- R.E. Weaver, CDC: strain 7120 <- Carolina State Hlth. Lab., USA <- San Antonio Community Hosp. Upland, CA, USA
NCBI tax ID(s): 28188 (species)
General
@ref: 7966
BacDive-ID: 5493
DSM-Number: 19204
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative, rod-shaped, human pathogen
description: Capnocytophaga canimorsus 2340-2-61 is a microaerophile, mesophilic, Gram-negative 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
@ref | history |
---|---|
7966 | <- CIP <- CCTM <- ATCC <- R. E. Weaver, CDC <- Carolina State Hlth. Lab., USA; 2340-2-61 <- San Antonio Community Hosp. Upland, CA, USA |
117132 | CIP <- 1994, CCTM <- 1993, ATCC <- R.E. Weaver, CDC: strain 7120 <- Carolina State Hlth. Lab., USA <- San Antonio Community Hosp. Upland, CA, USA |
doi: 10.13145/bacdive5493.20230509.8.1
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, 7120
type strain: yes
Morphology
cell morphology
- @ref: 117132
- gram stain: negative
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 7966
- incubation period: 3-7 days
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7966 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
7966 | CAPNOCYTOPHAGA II MEDIUM (DSMZ Medium 779) | yes | https://mediadive.dsmz.de/medium/779 | Name: 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 |
40877 | MEDIUM 26 - for Gardnerella and Propionibacterium lymphophilum | yes | Distilled water make up to (1000.000 ml);Horse serum (200.000 ml);Brainheart infusion (37.000 g);Maltose 10 % solution - M0173 (200.000 ml) | |
117132 | CIP Medium 26 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=26 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7966 | positive | growth | 37 | mesophilic |
40877 | positive | growth | 37 | mesophilic |
60064 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
7966 | microaerophile |
60064 | microaerophile |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
117132 | 17634 | D-glucose | - | degradation |
117132 | 17306 | maltose | - | degradation |
117132 | 17992 | sucrose | - | degradation |
117132 | 16947 | citrate | - | carbon source |
117132 | 4853 | esculin | + | hydrolysis |
117132 | 17632 | nitrate | - | reduction |
117132 | 16301 | nitrite | - | reduction |
68377 | 17634 | D-glucose | + | builds acid from |
68377 | 15824 | D-fructose | + | builds acid from |
68377 | 17306 | maltose | - | builds acid from |
68377 | 17992 | sucrose | - | builds acid from |
68377 | 18257 | ornithine | - | degradation |
68377 | 16199 | urea | - | hydrolysis |
68377 | 27897 | tryptophan | - | energy source |
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16024 | D-mannose | - | fermentation |
68380 | 16634 | raffinose | - | fermentation |
68380 | 29985 | L-glutamate | - | degradation |
68380 | 17632 | nitrate | - | reduction |
68380 | 27897 | tryptophan | - | energy source |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68377 | 35581 | indole | no |
117132 | 35581 | indole | no |
68380 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test |
---|---|---|---|
68380 | 35581 | indole | - |
68377 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | + | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | + | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68380 | serine arylamidase | + | |
68380 | glutamyl-glutamate arylamidase | + | |
68380 | histidine arylamidase | + | |
68380 | glycin arylamidase | + | |
68380 | alanine arylamidase | + | 3.4.11.2 |
68380 | tyrosine arylamidase | + | |
68380 | leucine arylamidase | + | 3.4.11.1 |
68380 | phenylalanine arylamidase | + | |
68380 | leucyl glycin arylamidase | + | 3.4.11.1 |
68380 | proline-arylamidase | + | 3.4.11.5 |
68380 | L-arginine arylamidase | + | |
68380 | alkaline phosphatase | + | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | + | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68380 | beta-glucuronidase | - | 3.2.1.31 |
68380 | alpha-arabinosidase | - | 3.2.1.55 |
68380 | alpha-glucosidase | + | 3.2.1.20 |
68380 | beta-Galactosidase 6-phosphate | - | |
68380 | beta-galactosidase | + | 3.2.1.23 |
68380 | alpha-galactosidase | - | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
68377 | tryptophan deaminase | - | 4.1.99.1 |
68377 | gamma-glutamyltransferase | - | 2.3.2.2 |
68377 | proline-arylamidase | - | 3.4.11.5 |
68377 | beta-galactosidase | + | 3.2.1.23 |
68377 | alkaline phosphatase | + | 3.1.3.1 |
68377 | lipase | - | |
68377 | urease | - | 3.5.1.5 |
68377 | ornithine decarboxylase | - | 4.1.1.17 |
68377 | beta-lactamase | - | 3.5.2.6 |
117132 | oxidase | - | |
117132 | beta-galactosidase | + | 3.2.1.23 |
117132 | alcohol dehydrogenase | - | 1.1.1.1 |
117132 | catalase | + | 1.11.1.6 |
117132 | lysine decarboxylase | - | 4.1.1.18 |
117132 | ornithine decarboxylase | - | 4.1.1.17 |
117132 | urease | - | 3.5.1.5 |
fatty acid profile
fatty acids
@ref fatty acid percentage ECL 60064 C14:0 0.6 14 60064 C16:0 2.2 16 60064 C18:0 1 18 60064 C13:0 iso 0.9 12.612 60064 C13:1 at 12-13 0.8 12.931 60064 C15:0 ANTEISO 2.6 14.711 60064 C15:0 ISO 68.1 14.621 60064 C15:0 ISO 3OH 3.3 16.135 60064 C16:0 3OH 2.3 17.52 60064 C17:0 iso 0.5 16.629 60064 C17:0 iso 3OH 9.3 18.161 60064 C18:1 ω9c 1.4 17.769 60064 C18:2 ω6,9c/C18:0 ANTE 2.1 17.724 60064 unknown 13.566 4.5 13.566 60064 unknown 16.580 0.5 16.58 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
60064 | - | + | + | + | - | + | + | - | + | - | + | + | - | - | - | + | - | + | - | + |
API NH
@ref | PEN | GLU | FRU | MAL | SAC | ODC | URE | LIP | PAL | beta GAL | ProA | GGT | IND |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
60064 | - | + | + | - | - | - | - | - | + | + | - | - | - |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7966 | - | - | - | + | - | + | +/- | - | - | + | - | - | - | + | - | - | + | + | + | + | + | + | +/- | + | + | + | + | + | + |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
117132 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date | isolation date |
---|---|---|---|---|---|---|---|
7966 | human male, 17 years old, blood after dog bite | Upland California | USA | USA | North America | ||
60064 | Human blood,dog bite | California,Upland,San Antonio | USA | USA | North America | 1961 | |
117132 | Human, Blood after dog bite | California | United States of America | USA | North America | 1961 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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 | pathogenicity human | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|---|
7966 | yes | yes | 2 | Risk group (German classification) |
117132 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Capnocytophaga canimorsus strain CIP 103936 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | AY661853 | 3555 | ena | 28188 |
20218 | Capnocytophaga canimorsus 16S ribosomal RNA gene, complete sequence | L14637 | 1465 | ena | 28188 |
20218 | C.canimorsus 16S rRNA gene | X97246 | 1423 | ena | 28188 |
7966 | Capnocytophaga canimorsus strain CIP 103936 16S ribosomal RNA gene, partial sequence | AY643075 | 1438 | ena | 28188 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Capnocytophaga canimorsus DSM 19204 | GCA_002797785 | contig | ncbi | 28188 |
66792 | Capnocytophaga canimorsus strain DSM 19204 | 28188.15 | wgs | patric | 28188 |
66792 | Capnocytophaga canimorsus strain NCTC12242 | 28188.21 | wgs | patric | 28188 |
66792 | Capnocytophaga canimorsus NCTC 12242 | 2814123379 | draft | img | 28188 |
66792 | Capnocytophaga canimorsus DSM 19204 | 2731639179 | draft | img | 28188 |
66792 | Capnocytophaga canimorsus NCTC12242 | GCA_900460905 | contig | ncbi | 28188 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 90.742 | no |
gram-positive | no | 97.949 | no |
anaerobic | no | 97.335 | yes |
halophile | no | 68.105 | no |
spore-forming | no | 96.029 | no |
glucose-util | yes | 82.132 | no |
flagellated | no | 95.551 | no |
aerobic | no | 87.578 | yes |
thermophile | no | 99.105 | yes |
glucose-ferment | no | 83.595 | no |
External links
@ref: 7966
culture collection no.: DSM 19204, ATCC 35979, CCTM La 3498, CCUG 53895, CDC 7120, CIP 103936, NCTC 12242
straininfo link
- @ref: 74980
- straininfo: 46021
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
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
7966 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19204) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19204 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
40877 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15788 | ||||
60064 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 53895) | https://www.ccug.se/strain?id=53895 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
74980 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID46021.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
117132 | Curators of the CIP | Collection of Institut Pasteur (CIP 103936) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103936 |