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Full information on isolate SRR6816599 (id:922)

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
922
isolate
SRR6816599
alias
CD23
species
C. diphtheriae
biovar
Gravis
isolation year
2014
country
Australia
continent
Oceania
travel history
Not documented
host
Human
source
Respiratory
accession number
PRJNA436425
epidemic cluster
cryptic_43
sender
Julien Guglielmini, Institut Pasteur, France
curator
Auto Tagger
update history
8 updates show details
date entered
2020-01-10
datestamp
2025-07-17

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
41
total length
2,371,269 bp
max length
411,855 bp
mean length
57,836 bp
N50
176,909
L50
4
N90
39,157
L90
15
N95
29,666
L95
18
%GC
53.44
Ns
0
gaps
0
loci tagged
1,305

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_19_4_2_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL32
Clonal group
ClG32
Genetic cluster
GC201

Show all thresholds

PrefixThresholdMatching isolates
0_0_19_4_2_082
0_0_19_4_2_0_042
0_0_19_4_2_0_0_022
0_0_19_4_2_0_0_0_012
0_0_19_4_2_0_0_0_0_002
012202380
0_010352162
0_0_19500102
0_0_19_45553
0_0_19_4_2252
0_0_19_4_2_082
0_0_19_4_2_0_042
0_0_19_4_2_0_0_022
0_0_19_4_2_0_0_0_012
0_0_19_4_2_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-linkage500experimental23 (30 isolates)
SL: 32
Genomic_clustercgMLSTSingle-linkage25experimental23 (17 isolates)
SublineagecgMLSTSingle-linkage500experimental23 (30 isolates)
SL: 32
Genomic_clustercgMLSTSingle-linkage25experimental23 (17 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

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