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Full information on isolate UK10 (id:4015)

Projects

This isolate is a member of the following projects:

2022_EuropeanWideReemergence_collection
Collection of the Hoefer et al. study on a large-scale Corynebacterium diphtheriae outbreak among migrant populations in Europe in 2022
DelgadoBlas_LINcodes_2025
Dataset of 1,665 isolates of C. diphtheriae, C. belfantii and C. rouxii used for the population structure analysis of C. diphtheriae sensu lato.

Provenance/primary metadata

id
4015
isolate
UK10
species
C. diphtheriae
tox gene PCR
Positive
tox production Elek
Positive
isolation year
2022
country
UK
continent
Europe
travel history
SY,SE,FR
host
Human
source
THROATSWAB
infection or disease
ASYMP
sender
Josh D'Aeth, UKHSA, UK
curator
Auto Tagger
update history
6 updates show details
date entered
2023-03-15
datestamp
2025-07-18

Sequence bin

method
Unknown
contigs
51
total length
2,470,375 bp
max length
379,013 bp
mean length
48,439 bp
N50
110,591
L50
8
N90
33,429
L90
21
N95
19,546
L95
25
%GC
53.59
Ns
0
gaps
0
loci tagged
1,353

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigs
Assembly size
Minimum N50
%GC

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Corynebacterium diphtheriae Actinomycetota > Actinomycetes > Mycobacteriales > Corynebacteriaceae > Corynebacterium > Corynebacterium diphtheriae 100%

Analysis performed: 2024-12-12

Similar isolates (determined by LIN codes)

Scheme
cgMLST
LIN code
0_0_85_1_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL574
Clonal group
ClG574
Genetic cluster
GC1

Show all thresholds

PrefixThresholdMatching isolates
0_0_85_1_0_08182
0_0_85_1_0_0_04181
0_0_85_1_0_0_0_02130
0_0_85_1_0_0_0_0_01113
0_0_85_1_0_0_0_0_0_00112
012202380
0_010352162
0_0_85500194
0_0_85_155182
0_0_85_1_025182
0_0_85_1_0_08182
0_0_85_1_0_0_04181
0_0_85_1_0_0_0_02130
0_0_85_1_0_0_0_0_01113
0_0_85_1_0_0_0_0_0_00112

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroupFields
SublineagecgMLSTSingle-linkage500experimental293 (186 isolates)
SL: 698
Genomic_clustercgMLSTSingle-linkage25experimental795 (170 isolates)
SublineagecgMLSTSingle-linkage500experimental293 (186 isolates)
SL: 698
Genomic_clustercgMLSTSingle-linkage25experimental795 (170 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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