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Full information on isolate 01-19 (id:1226)

Projects

This isolate is a member of the following projects:

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: 1226
isolate: 01-19
species: C. diphtheriae
biovar: Gravis
tox gene PCR: Negative
isolation year: 2019
country: Austria
continent: Europe
travel history: None
host: Human
source: throat
infection or disease: Diphtheria suspicion
comments: ST32
accession number: GCF_015831205.1
sender: Julien Guglielmini, Institut Pasteur, France
curator: Auto Tagger
update history: 1306 updates show details
date entered: 2021-04-08
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
Schaeffer J, Huhulescu S, Stoeger A, Allerberger F, Ruppitsch W (2021). Assessing the Genetic Diversity of Austrian Corynebacterium diphtheriae Clinical Isolates, 2011 to 2019. J Clin Microbiol 59:

Sequence bin

method: Illumina
contigs: 95
total length: 2,372,334 bp
max length: 204,285 bp
mean length: 24,972 bp
N50: 53,703
L50: 11
N90: 18,389
L90: 40
N95: 11,163
L95: 48
%GC: 53.46
Ns: 0
gaps: 0
loci tagged: 1,304

Show sequence bin

Assembly checks

Check	Status	Warn/fail reason
Number of contigs
Assembly size
Minimum N50
%GC

Similar isolates (determined by LIN codes)

Scheme: cgMLST
LIN code: 0_0_19_4_1_2_1_0_0_0
Species: C. diphtheriae
Lineage: 0_0
Sublineage: SL32
Clonal group: ClG32
Genetic cluster: GC28

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Prefix	Threshold	Matching isolates
0_0_19_4_1_2	8	2
0_0_19_4_1_2_1	4	1
0_0_19_4_1_2_1_0	2	1
0_0_19_4_1_2_1_0_0	1	1
0_0_19_4_1_2_1_0_0_0	0	1
0	1220	2380
0_0	1035	2162
0_0_19	500	102
0_0_19_4	55	53
0_0_19_4_1	25	45
0_0_19_4_1_2	8	2
0_0_19_4_1_2_1	4	1
0_0_19_4_1_2_1_0	2	1
0_0_19_4_1_2_1_0_0	1	1
0_0_19_4_1_2_1_0_0_0	0	1

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification scheme	Underlying scheme	Clustering method	Mismatch threshold	Status	Group	Fields
Sublineage	cgMLST	Single-linkage	500	experimental	23 (30 isolates)	SL: 32
Genomic_cluster	cgMLST	Single-linkage	25	experimental	23 (17 isolates)
Sublineage	cgMLST	Single-linkage	500	experimental	23 (30 isolates)	SL: 32
Genomic_cluster	cgMLST	Single-linkage	25	experimental	23 (17 isolates)

Schemes and loci

All loci
- Classical schemes
- Other schemes
  - PBP
  - spuA_island

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Tools

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