Full information on isolate CD204 (id:3853)
Projects
This isolate is a member of the following project:
- 2022_EuropeanWideReemergence_collection
- Collection of the Hoefer et al. study on a large-scale Corynebacterium diphtheriae outbreak among migrant populations in Europe in 2022
Provenance/primary metadata
- id
- 3853
- isolate
- CD204
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2022
- city
- Brescia
- country
- Italy
- continent
- Europe
- state or locality
- Lombardy
- travel history
- Unknown
- host
- human
- source
- skin
- infection or disease
- Cutaneous
- sender
- Monica Monaco, Istituto Superiore di Sanità -Rome-Italy
- curator
- Auto Tagger
- update history
- 5 updates show details
- embargo history
- show details
- date entered
- 2023-01-31
- datestamp
- 2025-07-18
Sequence bin
- method
- Ion Torrent
- contigs
- 75
- total length
- 2,471,059 bp
- max length
- 275,496 bp
- mean length
- 32,948 bp
- N50
- 107,534
- L50
- 8
- N90
- 45,400
- L90
- 21
- N95
- 18,568
- L95
- 26
- %GC
- 53.59
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,337
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_85_1_0_0_0_2_0_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL574
- Clonal group
- ClG574
- Genetic cluster
- GC1
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 | 293 (186 isolates) | SL: 698 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 795 (170 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 293 (186 isolates) | SL: 698 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 795 (170 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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