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Full information on isolate FRC0604 (id:792)

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)
French Guiana 2016-2021 study: Isolates included in the French Guiana 2016-2021 study (Gaillet et al., Emerg Inf Dis, 2024, https://pubmed.ncbi.nlm.nih.gov/39043387/)
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: 792
isolate: FRC0604
species: C. diphtheriae
biovar: Mitis
tox gene PCR: Negative
isolation year: 2018
country: French Guiana
continent: South America
state or locality: French Guiana
travel history: None
host: Human
source: Not documented
infection or disease: Cutaneous
sender: Sylvain Brisse, Institut Pasteur, Paris, France
curator: Auto Tagger
update history: 17 updates show details
embargo history: show details
date entered: 2018-10-16
datestamp: 2025-07-18

Sequence bin

method: Illumina
contigs: 46
total length: 2,460,061 bp
max length: 245,627 bp
mean length: 53,480 bp
N50: 141,212
L50: 7
N90: 35,258
L90: 19
N95: 26,116
L95: 23
%GC: 53.56
Ns: 0
gaps: 0
loci tagged: 1,365

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_227_0_0_1_0_0_0_0
Species: C. diphtheriae
Lineage: 0_0
Sublineage: SL579
Clonal group: ClG579
Genetic cluster: GC132

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Prefix	Threshold	Matching isolates
0_0_227_0_0_1	8	2
0_0_227_0_0_1_0	4	2
0_0_227_0_0_1_0_0	2	2
0_0_227_0_0_1_0_0_0	1	2
0_0_227_0_0_1_0_0_0_0	0	2
0	1220	2380
0_0	1035	2162
0_0_227	500	10
0_0_227_0	55	6
0_0_227_0_0	25	3
0_0_227_0_0_1	8	2
0_0_227_0_0_1_0	4	2
0_0_227_0_0_1_0_0	2	2
0_0_227_0_0_1_0_0_0	1	2
0_0_227_0_0_1_0_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	246 (10 isolates)	SL: 579
Genomic_cluster	cgMLST	Single-linkage	25	experimental	427 (3 isolates)
Sublineage	cgMLST	Single-linkage	500	experimental	246 (10 isolates)	SL: 579
Genomic_cluster	cgMLST	Single-linkage	25	experimental	427 (3 isolates)

Schemes and loci

All loci

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Tools

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