Full information on isolate FRC0493 (id:500)
Projects (4)
This isolate is a member of the following projects:
ResistanceGenomics public
Hennart et al. 247 isolates dataset
247 isolates
New Caledonia 2015-2019 study public
Isolates included in the New Caledonia study (Tessier et al., 2023, Microbiol Spectr, https://pubmed.ncbi.nlm.nih.gov/37042786/)
58 isolates
Hennart_diphtOscan_2023_OtherIsolates public
Publicly-available genomes and isolates from the French NRC (2018-2021)
1,250 isolates
Provenance/primary metadata
- id
- 500
- isolate
- FRC0493
- species
- C. diphtheriae
- biovar
- Gravis
- tox gene PCR
- Negative
- isolation year
- 2017
- country
- New Caledonia
- continent
- Oceania
- state or locality
- New Caledonia
- travel history
- Not documented
- host
- Human
- source
- Respiratory
- infection or disease
- Not documented
- accession number
- ERS4330968
- sender
- Melody Dazas, Institut Pasteur
- curator
- Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
- update history
- 26 updates show details
- date entered
- 2018-02-20
- datestamp
- 2026-09-01
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
- 53
- total length
- 2,363,156 bp
- max length
- 271,416 bp
- mean length
- 44,588 bp
- N50
- 126,381
- L50
- 7
- N90
- 29,411
- L90
- 23
- N95
- 16,360
- L95
- 29
- %GC
- 53.55
- Ns
- 110
- gaps
- 11
- loci tagged
- 1,349
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Minimum N50 |
Similar isolates (determined by LIN codes)
- Scheme
- cgMLST
- LIN code
- 0_14_2_0_0_1_0_0_0_0
- Species
- C. diphtheriae
- Lineage
- 0_14
- Sublineage
- SL533
- Clonal group
- ClG533
- Genetic cluster
- GC58
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 | 193 (7 isolates) | SL: 533 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 322 (7 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 193 (7 isolates) | SL: 533 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 322 (7 isolates) |
Schemes and loci
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Tools
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