Archive BacDiveID:10.13145/bacdive132461.20230509.8.1

Strain identifier

BacDive ID: 132461

Type strain:

Species: Capnocytophaga canis

Strain Designation: CcD38

Strain history: <- G. Cornelis, Université de Namur; CcD38

NCBI tax ID(s): 1848903 (species)

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

General

@ref: 24250

BacDive-ID: 132461

DSM-Number: 101831

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Capnocytophaga canis CcD38 is a mesophilic bacterium that was isolated from mouth of a healthy dog.

NCBI tax id

NCBI tax id: 1848903
Matching level: species

strain history

@ref: 24250
history: <- G. Cornelis, Université de Namur; CcD38

doi: 10.13145/bacdive132461.20230509.8.1

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 canis
full scientific name: Capnocytophaga canis Renzi et al. 2016

@ref: 24250

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Capnocytophaga

species: Capnocytophaga canis

full scientific name: Capnocytophaga canis Renzi et al. 2016

strain designation: CcD38

type strain: yes

Culture and growth conditions

culture medium

@ref: 24250
name: HEART INFUSION BLOOD AGAR (DSMZ Medium 1609)
growth: yes
link: https://mediadive.dsmz.de/medium/1609
composition: Name: HEART INFUSION BLOOD AGAR (DSMZ Medium 1609) Composition: Defibrinated Blood 75.0 g/l Bacto Heart Infusion Broth 25.0 g/l Agar 15.0 g/l Distilled water

culture temp

@ref: 24250
growth: positive
type: growth
temperature: 37
range: mesophilic

Isolation, sampling and environmental information

isolation

@ref: 24250
sample type: mouth of a healthy dog
country: Switzerland
origin.country: CHE
continent: Europe

isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Canidae (Dog)
#Host Body-Site	#Oral cavity and airways	#Mouth

taxonmaps

@ref: 69479
File name: preview.99_1531.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15818;96_589;97_689;98_1208;99_1531&stattab=map
Last taxonomy: Capnocytophaga canis subclade
16S sequence: GQ167580
Sequence Identity:
Total samples: 1034
soil counts: 1
aquatic counts: 8
animal counts: 1023
plant counts: 2

Safety information

risk assessment

@ref: 24250
biosafety level: 2
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 24250
description: Capnocytophaga canis strain CcD38 16S ribosomal RNA gene, partial sequence
accession: GQ167580
length: 1058
database: ena
NCBI tax ID: 1848903

Genome sequences

@ref: 66792
description: Capnocytophaga canis CcD38
accession: GCA_000827555
assembly level: contig
database: ncbi
NCBI tax ID: 1848903

GC content

@ref: 24250
GC-content: 35.59
method: sequence analysis

Genome-based predictions

predictions

trait	prediction	confidence	training_data
motile	no	86.503	no
flagellated	no	94.98	no
gram-positive	no	98.402	no
anaerobic	no	96.112	no
aerobic	no	83.919	no
halophile	no	76.173	no
spore-forming	no	94.551	no
glucose-util	yes	83.027	no
thermophile	no	98.859	yes
glucose-ferment	no	80.886	no

External links

@ref: 24250

culture collection no.: DSM 101831, LMG 29146

straininfo link

@ref: 90798
straininfo: 396486

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	title	doi/url	catalogue	journal	pubmed
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	10.1099/ijsem.0.004332
24250	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-101831	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101831)
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)	https://diaspora-project.de/progress.html#genomes
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	10.1093/nar/gkaa1025		Nucleic Acids Res. 49: D498-D508 2020	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	https://microbeatlas.org/
90798	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	10.60712/SI-ID396486.1