Full information on isolate SRR6816575 (id:82)
Projects
This isolate is a member of the following project:
- cgMLST set-up study
- Isolates included in the cgMLST study (publicly-available genomes and some isolates from the French NRC)
Provenance/primary metadata
- id
- 82
- isolate
- SRR6816575
- alias
- CD8
- species
- C. diphtheriae
- biovar
- Gravis
- isolation year
- 2012
- country
- Australia
- continent
- Oceania
- travel history
- Not documented
- host
- Human
- source
- Respiratory
- accession number
- PRJNA436425
- epidemic cluster
- cryptic_17
- sender
- Julien Guglielmini, Institut Pasteur
- curator
- Mélanie Hennart, Institut Pasteur (E-mail: melanie.hennart@pasteur.fr)
- update history
- 8 updates show details
- date entered
- 2020-01-10
- datestamp
- 2023-01-24
Publications (2)
- 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
- Timms VJ, Nguyen T, Crighton T, Yuen M, Sintchenko V (2018). Genome-wide comparison of Corynebacterium diphtheriae isolates from Australia identifies differences in the Pan-genomes between respiratory and cutaneous strains. BMC Genomics 19:869
Sequence bin
- contigs
- 51
- total length
- 2,371,703 bp
- max length
- 281,113 bp
- mean length
- 46,504 bp
- N50
- 126,067
- L50
- 6
- N90
- 36,670
- L90
- 19
- N95
- 22,743
- L95
- 24
- %GC
- 53.44
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,301
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
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 | 23 (13 isolates) | SL: 32 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 23 (9 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 23 (13 isolates) | SL: 32 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 23 (9 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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