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Full information on isolate FRC0050 (id:114)

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
114
isolate
FRC0050
species
C. diphtheriae
biovar
Mitis
tox gene PCR
Positive
tox production Elek
Positive
isolation year
2009
country
Mayotte
continent
Africa
state or locality
Mayotte
travel history
None
host
Human
source
Not documented
infection or disease
Respiratory
accession number
ERS4330850
epidemic cluster
Mayotte set 2
sender
Marina Barros, Institut Pasteur
curator
Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
update history
1346 updates show details
date entered
2017-02-13
datestamp
2025-04-30
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
41
total length
2,424,319 bp
max length
537,084 bp
mean length
59,130 bp
N50
163,318
L50
5
N90
32,333
L90
18
N95
25,857
L95
22
%GC
53.49
Ns
10
gaps
1
loci tagged
1,412

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_128_2_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL490
Clonal group
ClG184
Genetic cluster
GC5

Show all thresholds

PrefixThresholdMatching isolates
0_0_128_2_0_0851
0_0_128_2_0_0_0451
0_0_128_2_0_0_0_0251
0_0_128_2_0_0_0_0_012
0_0_128_2_0_0_0_0_0_002
012202380
0_010352162
0_0_12850056
0_0_128_25551
0_0_128_2_02551
0_0_128_2_0_0851
0_0_128_2_0_0_0451
0_0_128_2_0_0_0_0251
0_0_128_2_0_0_0_0_012
0_0_128_2_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-linkage500experimental65 (56 isolates)
SL: 184
Genomic_clustercgMLSTSingle-linkage25experimental86 (51 isolates)
SublineagecgMLSTSingle-linkage500experimental65 (56 isolates)
SL: 184
Genomic_clustercgMLSTSingle-linkage25experimental86 (51 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

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