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Full information on isolate FRC0025 (id:103)

Projects

This isolate is a member of the following projects:

cgMLST set-up study
Isolates included in the cgMLST study (Guglielmini et al. J CLin Microbiol 2021 https://pubmed.ncbi.nlm.nih.gov/34524891/)
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
103
isolate
FRC0025
species
C. diphtheriae
biovar
Mitis
tox gene PCR
Negative
tox production Elek
Negative
isolation year
2008
country
Mayotte
continent
Africa
state or locality
Mayotte
travel history
None
host
Human
source
Not documented
infection or disease
Respiratory
accession number
ERS4330842
epidemic cluster
Mayotte set 1
sender
Marina Barros, Institut Pasteur
curator
Auto Tagger
update history
1352 updates show details
date entered
2017-02-13
datestamp
2025-07-18
outbreak or sporadic
Cluster

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
  • 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
31
total length
2,413,521 bp
max length
368,693 bp
mean length
77,856 bp
N50
300,196
L50
4
N90
51,567
L90
11
N95
24,097
L95
15
%GC
53.59
Ns
10
gaps
1
loci tagged
1,412

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_100_1_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL351
Clonal group
ClG97
Genetic cluster
GC154

Show all thresholds

PrefixThresholdMatching isolates
0_0_100_1_0_082
0_0_100_1_0_0_042
0_0_100_1_0_0_0_022
0_0_100_1_0_0_0_0_012
0_0_100_1_0_0_0_0_0_002
012202380
0_010352162
0_0_1005008
0_0_100_1554
0_0_100_1_0253
0_0_100_1_0_082
0_0_100_1_0_0_042
0_0_100_1_0_0_0_022
0_0_100_1_0_0_0_0_012
0_0_100_1_0_0_0_0_0_002

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-linkage500experimental59 (8 isolates)
SL: 97
Genomic_clustercgMLSTSingle-linkage25experimental78 (3 isolates)
SublineagecgMLSTSingle-linkage500experimental59 (8 isolates)
SL: 97
Genomic_clustercgMLSTSingle-linkage25experimental78 (3 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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