Full information on isolate YEM0040 (id:539)
Projects
This isolate is a member of the following project:
- yemen2019
- Yemen 2017-2020 outbreak
Provenance/primary metadata
- id
- 539
- isolate
- YEM0040
- alias
- YE-NCPHL-200
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2018
- city
- Sanaa
- country
- Yemen
- continent
- Asia
- travel history
- Not documented
- host
- Human
- accession number
- ERR4332885
- sender
- Sylvain Brisse, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 11 updates show details
- date entered
- 2019-10-20
- datestamp
- 2022-08-09
Publication (1)
- Badell E, Alharazi A, Criscuolo A, Almoayed KAA, Lefrancq N, Bouchez V, Guglielmini J, Hennart M, Carmi-Leroy A, Zidane N, Pascal-Perrigault M, Lebreton M, Martini H, Salje H, Toubiana J, Dureab F, Dhabaan G, Brisse S (2021). Ongoing diphtheria outbreak in Yemen: a cross-sectional and genomic epidemiology study. Lancet Microbe 2:e386-e396
Sequence bin
- contigs
- 48
- total length
- 2,527,753 bp
- max length
- 315,726 bp
- mean length
- 52,662 bp
- N50
- 150,389
- L50
- 6
- N90
- 31,497
- L90
- 22
- N95
- 23,981
- L95
- 26
- %GC
- 53.56
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,302
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
Similar isolates (determined by classification schemes)
Some groups only contain this isolate. Show single groups
Experimental schemes are subject to change and are not a stable part of the nomenclature.
Schemes and loci
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