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Full information on isolate rz553 (id:193)

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/)
SL453 study in 2022
See Arcari et al. Microbial Genomics 2023 (IDs 2315 and 2336 were added after publication)
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
193
isolate
rz553
alias
ASM211532v1
species
C. diphtheriae
isolation year
2016
city
Alor Setar
country
Malaysia
continent
Asia
travel history
Not documented
host
Human
source
throat swab
infection or disease
diphtheria
accession number
GCA_002115325.1
epidemic cluster
cryptic_7
sender
Melody Dazas, Institut Pasteur
curator
Auto Tagger
update history
1314 updates show details
date entered
2017-12-19
datestamp
2025-07-18

Publications (2)

  • Ahmad N, Hii SY, Mohd Khalid MK, Abd Wahab MA, Hashim R, Tang SN, Liow YL, Hamzah H, Dahalan NA, Seradja V (2017). First Draft Genome Sequences of Malaysian Clinical Isolates of Corynebacterium diphtheriae. Genome Announc 5:
  • 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
35
total length
2,436,284 bp
max length
318,463 bp
mean length
69,609 bp
N50
158,325
L50
5
N90
78,139
L90
14
N95
25,731
L95
17
%GC
53.55
Ns
0
gaps
0
loci tagged
1,394

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_165_2_0_1_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL40
Clonal group
ClG453
Genetic cluster
GC42

Show all thresholds

PrefixThresholdMatching isolates
0_0_165_2_0_186
0_0_165_2_0_1_046
0_0_165_2_0_1_0_026
0_0_165_2_0_1_0_0_011
0_0_165_2_0_1_0_0_0_001
012202380
0_010352162
0_0_16550035
0_0_165_25510
0_0_165_2_02510
0_0_165_2_0_186
0_0_165_2_0_1_046
0_0_165_2_0_1_0_026
0_0_165_2_0_1_0_0_011
0_0_165_2_0_1_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-linkage500experimental21 (34 isolates)
SL: 453
Genomic_clustercgMLSTSingle-linkage25experimental21 (10 isolates)
SublineagecgMLSTSingle-linkage500experimental21 (34 isolates)
SL: 453
Genomic_clustercgMLSTSingle-linkage25experimental21 (10 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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