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Full information on isolate CMCTH2020 (id:69)

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: 69
isolate: CMCTH2020
alias: ASM198126v1
species: C. diphtheriae
isolation year: 2016
city: Vellore
country: India
continent: Asia
travel history: Not documented
host: Human
source: throat
infection or disease: diphtheria
accession number: GCA_001981265.1
epidemic cluster: cryptic_13
sender: Melody Dazas, Institut Pasteur
curator: Auto Tagger
update history: 1308 updates show details
embargo history: show details
date entered: 2017-02-10
datestamp: 2025-07-17

Publication (1)

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

Sequence bin

method: Unknown
contigs: 59
total length: 2,541,843 bp
max length: 498,897 bp
mean length: 43,083 bp
N50: 186,677
L50: 4
N90: 59,808
L90: 15
N95: 31,343
L95: 18
%GC: 53.46
Ns: 0
gaps: 0
loci tagged: 1,343

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_209_5_0_2_0_0_0_0
Species: C. diphtheriae
Lineage: 0_0
Sublineage: SL295
Clonal group: ClG10185
Genetic cluster: GC147

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Prefix	Threshold	Matching isolates
0_0_209_5_0_2	8	1
0_0_209_5_0_2_0	4	1
0_0_209_5_0_2_0_0	2	1
0_0_209_5_0_2_0_0_0	1	1
0_0_209_5_0_2_0_0_0_0	0	1
0	1220	2380
0_0	1035	2162
0_0_209	500	14
0_0_209_5	55	2
0_0_209_5_0	25	2
0_0_209_5_0_2	8	1
0_0_209_5_0_2_0	4	1
0_0_209_5_0_2_0_0	2	1
0_0_209_5_0_2_0_0_0	1	1
0_0_209_5_0_2_0_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	41 (13 isolates)	SL: 295
Genomic_cluster	cgMLST	Single-linkage	25	experimental	51 (2 isolates)
Sublineage	cgMLST	Single-linkage	500	experimental	41 (13 isolates)	SL: 295
Genomic_cluster	cgMLST	Single-linkage	25	experimental	51 (2 isolates)

Schemes and loci

All loci

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