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Full information on isolate HC01 (id:22)

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/)
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
22
isolate
HC01
alias
ASM25523v1
species
C. diphtheriae
isolation year
1993
city
Rio de Janeiro
country
Brazil
continent
South America
travel history
Not documented
host
Human
source
blood
infection or disease
endocarditis
accession number
CP003212
epidemic cluster
cryptic_3
sender
Melody Dazas, Institut Pasteur
curator
Mélanie Hennart, Institut Pasteur, France (E-mail: melanie.hennart@orange.fr)
update history
1091 updates show details
embargo history
show details
date entered
2017-02-07
datestamp
2023-01-24

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
  • Trost E, Blom J, Soares Sde C, Huang IH, Al-Dilaimi A, Schröder J, Jaenicke S, Dorella FA, Rocha FS, Miyoshi A, Azevedo V, Schneider MP, Silva A, Camello TC, Sabbadini PS, Santos CS, Santos LS, Hirata R, Mattos-Guaraldi AL, Efstratiou A, Schmitt MP, Ton-That H, Tauch A (2012). Pangenomic study of Corynebacterium diphtheriae that provides insights into the genomic diversity of pathogenic isolates from cases of classical diphtheria, endocarditis, and pneumonia. J Bacteriol 194:3199-215

Sequence bin

method
Unknown
contigs
1
length
2,427,149 bp
%GC
53.43
Ns
0
gaps
0
loci tagged
1,336

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_72_0_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL175
Clonal group
ClG175
Genetic cluster
GC160

Show all thresholds

PrefixThresholdMatching isolates
0_0_72_0_0_082
0_0_72_0_0_0_042
0_0_72_0_0_0_0_022
0_0_72_0_0_0_0_0_011
0_0_72_0_0_0_0_0_0_001
012202380
0_010352162
0_0_725002
0_0_72_0552
0_0_72_0_0252
0_0_72_0_0_082
0_0_72_0_0_0_042
0_0_72_0_0_0_0_022
0_0_72_0_0_0_0_0_011
0_0_72_0_0_0_0_0_0_001

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-linkage500experimental7 (2 isolates)
SL: 175
Genomic_clustercgMLSTSingle-linkage25experimental7 (2 isolates)
SublineagecgMLSTSingle-linkage500experimental7 (2 isolates)
SL: 175
Genomic_clustercgMLSTSingle-linkage25experimental7 (2 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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