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Full information on isolate SRR6816567 (id:76)

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
76
isolate
SRR6816567
alias
CD31
species
C. diphtheriae
biovar
Mitis
isolation year
2015
country
Australia
continent
Oceania
travel history
Not documented
host
Human
source
Cutaneous (site unknown)
accession number
PRJNA436425
sender
Julien Guglielmini, Institut Pasteur, France
curator
Auto Tagger
update history
10 updates show details
date entered
2020-01-10
datestamp
2025-07-18

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
  • Timms VJ, Nguyen T, Crighton T, Yuen M, Sintchenko V (2018). Genome-wide comparison of Corynebacterium diphtheriae isolates from Australia identifies differences in the Pan-genomes between respiratory and cutaneous strains. BMC Genomics 19:869

Sequence bin

method
Illumina
contigs
60
total length
2,542,026 bp
max length
385,263 bp
mean length
42,368 bp
N50
158,333
L50
5
N90
40,347
L90
15
N95
21,196
L95
20
%GC
53.68
Ns
0
gaps
0
loci tagged
1,290

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_14_4_0_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_14
Sublineage
SL524
Clonal group
ClG524
Genetic cluster
GC52

Show all thresholds

PrefixThresholdMatching isolates
0_14_4_0_0_081
0_14_4_0_0_0_041
0_14_4_0_0_0_0_021
0_14_4_0_0_0_0_0_011
0_14_4_0_0_0_0_0_0_001
012202380
0_14103540
0_14_45009
0_14_4_0558
0_14_4_0_0258
0_14_4_0_0_081
0_14_4_0_0_0_041
0_14_4_0_0_0_0_021
0_14_4_0_0_0_0_0_011
0_14_4_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-linkage500experimental45 (9 isolates)
SL: 744
Genomic_clustercgMLSTSingle-linkage25experimental57 (8 isolates)
SublineagecgMLSTSingle-linkage500experimental45 (9 isolates)
SL: 744
Genomic_clustercgMLSTSingle-linkage25experimental57 (8 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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