Home About Us Contact What's New
Home>Organism>Corynebacterium cgMLST>Isolate information
Help

Full information on isolate CIP107559 (id:583)

Projects

This isolate is a member of the following projects:

ResistanceGenomics
Hennart et al. 247 isolates dataset
SL453 study in 2022
See Arcari et al. Microbial Genomics 2023 (IDs 2315 and 2336 were added after publication)
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
583
isolate
CIP107559
species
C. diphtheriae
biovar
Mitis
tox gene PCR
Positive
tox production Elek
Positive
isolation year
1990
city
St Albans
country
India
continent
Asia
travel history
Not documented
host
Human
accession number
ERS4330819
sender
Melody Dazas, Institut Pasteur
curator
Auto Tagger
update history
19 updates show details
date entered
2018-02-20
datestamp
2025-07-18

Publication (1)

  • Hennart M, Panunzi LG, Rodrigues C, Gaday Q, Baines SL, Barros-Pinkelnig M, Carmi-Leroy A, Dazas M, Wehenkel AM, Didelot X, Toubiana J, Badell E, Brisse S (2020). Population genomics and antimicrobial resistance in Corynebacterium diphtheriae. Genome Med 12:107

Sequence bin

method
Illumina
contigs
34
total length
2,460,307 bp
max length
299,458 bp
mean length
72,362 bp
N50
140,989
L50
6
N90
50,042
L90
15
N95
28,371
L95
18
%GC
53.54
Ns
0
gaps
0
loci tagged
1,386

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: 2025-06-05

Similar isolates (determined by LIN codes)

Scheme
cgMLST
LIN code
0_0_165_5_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL40
Clonal group
ClG20
Genetic cluster
GC880

Show all thresholds

PrefixThresholdMatching isolates
0_0_165_5_0_081
0_0_165_5_0_0_041
0_0_165_5_0_0_0_021
0_0_165_5_0_0_0_0_011
0_0_165_5_0_0_0_0_0_001
012202242
0_010352024
0_0_16550035
0_0_165_5551
0_0_165_5_0251
0_0_165_5_0_081
0_0_165_5_0_0_041
0_0_165_5_0_0_0_021
0_0_165_5_0_0_0_0_011
0_0_165_5_0_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-linkage500experimental21 (34 isolates)
SL: 453
SublineagecgMLSTSingle-linkage500experimental21 (34 isolates)
SL: 453
Genomic_clustercgMLSTSingle-linkage25experimental381 (1 isolate)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

Export:
Third party:
Analysis: