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Full information on isolate CS20 (id:1330)

Projects

This isolate is a member of the following projects:

Hennart_diphtOscan_2023_OtherIsolates
Publicly-available genomes and isolates from the French NRC (2018-2021)
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
1330
isolate
CS20
alias
2019028
species
C. diphtheriae
isolation year
2019
country
Spain
continent
Europe
travel history
None
host
Human
source
Oropharyngeal swab
accession number
SAMEA7617337
sender
Julien Guglielmini, Institut Pasteur, France
curator
Auto Tagger
update history
1301 updates show details
date entered
2021-04-09
datestamp
2025-07-17

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
  • Hoefer A, Pampaka D, Herrera-León S, Peiró S, Varona S, López-Perea N, Masa-Calles J, Herrera-León L (2021). Molecular and Epidemiological Characterization of Toxigenic and Nontoxigenic Corynebacterium diphtheriae, Corynebacterium belfantii, Corynebacterium rouxii, and Corynebacterium ulcerans Isolates Identified in Spain from 2014 to 2019. J Clin Microbiol 59:

Sequence bin

method
Illumina
contigs
51
total length
2,376,601 bp
max length
360,090 bp
mean length
46,601 bp
N50
139,967
L50
6
N90
46,340
L90
17
N95
25,737
L95
21
%GC
53.44
Ns
0
gaps
0
loci tagged
1,299

Show sequence bin

Assembly checks

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

Similar isolates (determined by LIN codes)

Scheme
cgMLST
LIN code
0_0_19_4_6_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL32
Clonal group
ClG32
Genetic cluster
GC840

Show all thresholds

PrefixThresholdMatching isolates
0_0_19_4_6_081
0_0_19_4_6_0_041
0_0_19_4_6_0_0_021
0_0_19_4_6_0_0_0_011
0_0_19_4_6_0_0_0_0_001
012202380
0_010352162
0_0_19500102
0_0_19_45553
0_0_19_4_6251
0_0_19_4_6_081
0_0_19_4_6_0_041
0_0_19_4_6_0_0_021
0_0_19_4_6_0_0_0_011
0_0_19_4_6_0_0_0_0_001

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.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroupFields
SublineagecgMLSTSingle-linkage500experimental23 (30 isolates)
SL: 32
SublineagecgMLSTSingle-linkage500experimental23 (30 isolates)
SL: 32
Genomic_clustercgMLSTSingle-linkage25experimental645 (1 isolate)

Schemes and loci

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