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Full information on isolate FRC0409 (id:171)

Projects

This isolate is a member of the following projects:

ResistanceGenomics
Hennart et al. 247 isolates dataset
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
171
isolate
FRC0409
species
C. diphtheriae
biovar
Mitis
tox gene PCR
Negative
isolation year
2016
country
Mayotte
continent
Africa
state or locality
Mayotte
travel history
Not documented
host
Human
source
Not documented
infection or disease
Wound
accession number
ERS4330929
sender
Melody Dazas, Institut Pasteur
curator
Auto Tagger
update history
1333 updates show details
date entered
2017-05-02
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
23
total length
2,434,340 bp
max length
643,893 bp
mean length
105,841 bp
N50
232,995
L50
4
N90
73,468
L90
10
N95
42,011
L95
13
%GC
53.68
Ns
0
gaps
0
loci tagged
1,395

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: 2024-01-25

Similar isolates (determined by LIN codes)

Scheme
cgMLST
LIN code
0_0_192_0_2_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL50
Clonal group
ClG388
Genetic cluster
GC963

Show all thresholds

PrefixThresholdMatching isolates
0_0_192_0_2_081
0_0_192_0_2_0_041
0_0_192_0_2_0_0_021
0_0_192_0_2_0_0_0_011
0_0_192_0_2_0_0_0_0_001
012202380
0_010352162
0_0_19250084
0_0_192_0556
0_0_192_0_2251
0_0_192_0_2_081
0_0_192_0_2_0_041
0_0_192_0_2_0_0_021
0_0_192_0_2_0_0_0_011
0_0_192_0_2_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-linkage500experimental18 (74 isolates)
SL: 50
SublineagecgMLSTSingle-linkage500experimental18 (74 isolates)
SL: 50
Genomic_clustercgMLSTSingle-linkage25experimental126 (1 isolate)

Schemes and loci

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Tools

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