Full information on isolate FRC0001 (id:354)
Projects (3)
This isolate is a member of the following projects:
cgMLST set-up study public
Isolates included in the cgMLST study (Guglielmini et al. J CLin Microbiol 2021 https://pubmed.ncbi.nlm.nih.gov/34524891/)
440 isolates
Hennart_diphtOscan_2023_OtherIsolates public
Publicly-available genomes and isolates from the French NRC (2018-2021)
1,250 isolates
DelgadoBlas_LINcodes_2025 public
Dataset of 1,665 isolates of C. diphtheriae, C. belfantii and C. rouxii used for the population structure analysis of C. diphtheriae sensu lato.
1,665 isolates
Provenance/primary metadata
- id
- 354
- isolate
- FRC0001
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Negative
- tox production Elek
- Negative
- isolation year
- 2008
- country
- Mayotte
- continent
- Africa
- state or locality
- Mayotte
- travel history
- Not documented
- host
- Human
- source
- Cutaneous
- infection or disease
- Not documented
- epidemic cluster
- cryptic_22
- sender
- Melody Dazas, Institut Pasteur
- curator
- Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
- update history
- 20 updates show details
- embargo history
- show details
- date entered
- 2018-02-20
- datestamp
- 2025-04-30
- outbreak or sporadic
- Sporadic
Publication (1)
- Guglielmini J, Hennart M, Badell E, Toubiana J, Criscuolo A, Brisse S (2021). Genomic Epidemiology and Strain Taxonomy of Corynebacterium diphtheriae. J Clin Microbiol 59:e0158121
Sequence bin
- method
- Illumina
- contigs
- 41
- total length
- 2,411,778 bp
- max length
- 403,606 bp
- mean length
- 58,824 bp
- N50
- 270,079
- L50
- 4
- N90
- 37,659
- L90
- 18
- N95
- 24,855
- L95
- 22
- %GC
- 53.61
- Ns
- 188
- gaps
- 1
- loci tagged
- 1,399
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Minimum N50 |
Similar isolates (determined by LIN codes)
- Scheme
- cgMLST
- LIN code
- 0_1_0_0_0_0_0_1_0_0
- Species
- C. diphtheriae
- Lineage
- 0_1
- Sublineage
- SL88
- Clonal group
- ClG853
- Genetic cluster
- GC92
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 | 60 (20 isolates) | SL: 88 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 79 (4 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 60 (20 isolates) | SL: 88 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 79 (4 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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