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Full information on isolate FRC0985 (id:1168)

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: 1168
isolate: FRC0985
species: C. diphtheriae
biovar: Belfanti
tox gene PCR: Negative
isolation year: 2020
country: French Guiana
continent: South America
state or locality: French Guiana
travel history: None
host: Human
source: Cutaneous
infection or disease: Not documented
sender: Virginie Passet, Institut Pasteur, France
curator: Auto Tagger
update history: 12 updates show details
embargo history: show details
date entered: 2021-01-25
datestamp: 2025-07-18

Sequence bin

method: Unknown
contigs: 71
total length: 2,394,847 bp
max length: 224,795 bp
mean length: 33,731 bp
N50: 74,160
L50: 10
N90: 19,760
L90: 35
N95: 12,738
L95: 42
%GC: 53.44
Ns: 0
gaps: 0
loci tagged: 1,291

Show sequence bin

Assembly checks

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

Analysis

rMLST species identification

Rank	Taxon	Taxonomy	Support	Matches
SPECIES	Corynebacterium diphtheriae	Actinomycetota > Actinomycetes > Mycobacteriales > Corynebacteriaceae > Corynebacterium > Corynebacterium diphtheriae	100%

Analysis performed: 2025-06-05

Similar isolates (determined by LIN codes)

Scheme: cgMLST
LIN code: 0_0_226_0_0_0_0_0_0_0
Species: C. diphtheriae
Lineage: 0_0
Sublineage: SL764
Clonal group: ClG764
Genetic cluster: GC146

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Prefix	Threshold	Matching isolates
0_0_226_0_0_0	8	3
0_0_226_0_0_0_0	4	1
0_0_226_0_0_0_0_0	2	1
0_0_226_0_0_0_0_0_0	1	1
0_0_226_0_0_0_0_0_0_0	0	1
0	1220	2380
0_0	1035	2162
0_0_226	500	3
0_0_226_0	55	3
0_0_226_0_0	25	3
0_0_226_0_0_0	8	3
0_0_226_0_0_0_0	4	1
0_0_226_0_0_0_0_0	2	1
0_0_226_0_0_0_0_0_0	1	1
0_0_226_0_0_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	289 (3 isolates)	SL: 764
Genomic_cluster	cgMLST	Single-linkage	25	experimental	565 (3 isolates)
Sublineage	cgMLST	Single-linkage	500	experimental	289 (3 isolates)	SL: 764
Genomic_cluster	cgMLST	Single-linkage	25	experimental	565 (3 isolates)

Schemes and loci

All loci
- Classical schemes
- Other schemes
  - PBP
  - spuA_island

Navigate and select schemes within tree to display allele designations

Tools

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