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Full information on isolate FRC0544 (id:534)

Projects

This isolate is a member of the following projects:

ResistanceGenomics: Hennart et al. 247 isolates dataset
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: 534
isolate: FRC0544
species: C. diphtheriae
biovar: Mitis
tox gene PCR: Negative
isolation year: 2017
country: Mayotte
continent: Africa
state or locality: Mayotte
travel history: Not documented
host: Human
source: Cutaneous and soft tissue
infection or disease: Cutaneous and soft tissue infection
other source info: Surinfected Elephantiosis
accession number: ERS4330987
sender: Melody Dazas, Institut Pasteur
curator: Auto Tagger
update history: 23 updates show details
date entered: 2018-02-20
datestamp: 2025-07-18

Publication (1)

Hennart M, Panunzi LG, Rodrigues C, Gaday Q, Baines SL, Barros-Pinkelnig M, Carmi-Leroy A, Dazas M, Wehenkel AM, Didelot X, Toubiana J, Badell E, Brisse S (2020). Population genomics and antimicrobial resistance in Corynebacterium diphtheriae. Genome Med 12:107

Sequence bin

method: Illumina
contigs: 24
total length: 2,441,404 bp
max length: 644,087 bp
mean length: 101,726 bp
N50: 250,391
L50: 3
N90: 49,612
L90: 10
N95: 25,197
L95: 13
%GC: 53.67
Ns: 0
gaps: 0
loci tagged: 1,396

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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_192_0_1_0_0_0_0_0
Species: C. diphtheriae
Lineage: 0_0
Sublineage: SL50
Clonal group: ClG388
Genetic cluster: GC106

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Prefix	Threshold	Matching isolates
0_0_192_0_1_0	8	1
0_0_192_0_1_0_0	4	1
0_0_192_0_1_0_0_0	2	1
0_0_192_0_1_0_0_0_0	1	1
0_0_192_0_1_0_0_0_0_0	0	1
0	1220	2380
0_0	1035	2162
0_0_192	500	84
0_0_192_0	55	6
0_0_192_0_1	25	4
0_0_192_0_1_0	8	1
0_0_192_0_1_0_0	4	1
0_0_192_0_1_0_0_0	2	1
0_0_192_0_1_0_0_0_0	1	1
0_0_192_0_1_0_0_0_0_0	0	1

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	18 (74 isolates)	SL: 50
Genomic_cluster	cgMLST	Single-linkage	25	experimental	127 (5 isolates)
Sublineage	cgMLST	Single-linkage	500	experimental	18 (74 isolates)	SL: 50
Genomic_cluster	cgMLST	Single-linkage	25	experimental	127 (5 isolates)

Schemes and loci

All loci

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