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Full information on isolate FRC0038 (id:111)

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
111
isolate
FRC0038
species
C. diphtheriae
biovar
Mitis
tox gene PCR
Negative
tox production Elek
Negative
isolation year
2009
country
Mayotte
continent
Africa
state or locality
Mayotte
travel history
None
host
Human
source
Not documented
infection or disease
Wound
accession number
ERS4330849
sender
Marina Barros, Institut Pasteur
curator
Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
update history
1352 updates show details
date entered
2017-02-13
datestamp
2025-04-30
outbreak or sporadic
Sporadic

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
34
total length
2,415,157 bp
max length
401,771 bp
mean length
71,035 bp
N50
154,419
L50
5
N90
45,193
L90
15
N95
25,418
L95
19
%GC
53.47
Ns
0
gaps
0
loci tagged
1,413

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_12_1_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL102
Clonal group
ClG10012
Genetic cluster
GC758

Show all thresholds

PrefixThresholdMatching isolates
0_0_12_1_0_081
0_0_12_1_0_0_041
0_0_12_1_0_0_0_021
0_0_12_1_0_0_0_0_011
0_0_12_1_0_0_0_0_0_001
012202380
0_010352162
0_0_1250013
0_0_12_1551
0_0_12_1_0251
0_0_12_1_0_081
0_0_12_1_0_0_041
0_0_12_1_0_0_0_021
0_0_12_1_0_0_0_0_011
0_0_12_1_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-linkage500experimental62 (13 isolates)
SL: 102
SublineagecgMLSTSingle-linkage500experimental62 (13 isolates)
SL: 102
Genomic_clustercgMLSTSingle-linkage25experimental84 (1 isolate)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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