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Full information on isolate CIP80-56 (id:817)

Projects

This isolate is a member of the following projects:

Hennart_diphtOscan_2023_OtherIsolates: Publicly-available genomes and isolates from the French NRC (2018-2021)
DelgadoBlas_LINcodes_2025: Dataset of 1,665 isolates of C. diphtheriae, C. belfantii and C. rouxii used for the population structure analysis of C. diphtheriae sensu lato.

Provenance/primary metadata

id: 817
isolate: CIP80-56
species: C. diphtheriae
biovar: Mitis
tox gene PCR: Negative
tox production Elek: Negative
isolation year: 1978
city: Versailles
country: France
continent: Europe
travel history: None
host: Human
source: Bone
sender: Sylvain Brisse, Institut Pasteur, Paris, France
curator: Auto Tagger
update history: 12 updates show details
embargo history: show details
date entered: 2019-03-08
datestamp: 2025-07-17

Sequence bin

method: Illumina
contigs: 25
total length: 2,440,182 bp
max length: 347,840 bp
mean length: 97,608 bp
N50: 300,106
L50: 4
N90: 72,511
L90: 11
N95: 29,842
L95: 14
%GC: 53.49
Ns: 0
gaps: 0
loci tagged: 1,396

Show sequence bin

Assembly checks

Check	Status	Warn/fail reason
Number of contigs
Assembly size
Minimum N50
%GC

Similar isolates (determined by LIN codes)

Scheme: cgMLST
LIN code: 0_0_0_0_0_0_1_0_0_0
Species: C. diphtheriae
Lineage: 0_0
Sublineage: SL8
Clonal group: ClG8
Genetic cluster: GC29

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Prefix	Threshold	Matching isolates
0_0_0_0_0_0	8	5
0_0_0_0_0_0_1	4	2
0_0_0_0_0_0_1_0	2	2
0_0_0_0_0_0_1_0_0	1	2
0_0_0_0_0_0_1_0_0_0	0	2
0	1220	2380
0_0	1035	2162
0_0_0	500	88
0_0_0_0	55	88
0_0_0_0_0	25	13
0_0_0_0_0_0	8	5
0_0_0_0_0_0_1	4	2
0_0_0_0_0_0_1_0	2	2
0_0_0_0_0_0_1_0_0	1	2
0_0_0_0_0_0_1_0_0_0	0	2

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification scheme	Underlying scheme	Clustering method	Mismatch threshold	Status	Group	Fields
Sublineage	cgMLST	Single-linkage	500	experimental	1 (88 isolates)	SL: 8
Genomic_cluster	cgMLST	Single-linkage	25	experimental	1 (13 isolates)
Sublineage	cgMLST	Single-linkage	500	experimental	1 (88 isolates)	SL: 8
Genomic_cluster	cgMLST	Single-linkage	25	experimental	1 (13 isolates)

Schemes and loci

All loci

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Tools

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