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Full information on isolate HC07 (id:30)

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
30
isolate
HC07
alias
ASM95397v1
species
C. diphtheriae
tox gene PCR
Negative
isolation year
2013
city
Rio de Janeiro
country
Brazil
continent
South America
travel history
Not documented
host
Human
source
blood
infection or disease
endocarditis
accession number
GCA_000953975.1
sender
Melody Dazas, Institut Pasteur
curator
Auto Tagger
update history
1328 updates show details
embargo history
show details
date entered
2017-02-07
datestamp
2025-07-17

Publications (3)

  • Encinas F, Marin MA, Ramos JN, Vieira VV, Mattos-Guaraldi AL, Vicente AC (2015). Genomic analysis of a nontoxigenic, invasive Corynebacterium diphtheriae strain from Brazil. Mem Inst Oswaldo Cruz 110:817-9
  • Fokin VF, Veskov R (1972). [The spatial-temporal characteristics of evoked potentials in the posterior ventrolateral nucleus of the cat thalamus]. Neirofiziologiia 4:439-46
  • 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
70
total length
2,491,635 bp
max length
384,161 bp
mean length
35,595 bp
N50
116,659
L50
6
N90
40,950
L90
18
N95
24,349
L95
22
%GC
53.53
Ns
0
gaps
0
loci tagged
1,399

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_0_43_1_0_0_0_0_0_0
Species
C. diphtheriae
Lineage
0_0
Sublineage
SL171
Clonal group
ClG10045
Genetic cluster
GC910

Show all thresholds

PrefixThresholdMatching isolates
0_0_43_1_0_081
0_0_43_1_0_0_041
0_0_43_1_0_0_0_021
0_0_43_1_0_0_0_0_011
0_0_43_1_0_0_0_0_0_001
012202380
0_010352162
0_0_435002
0_0_43_1551
0_0_43_1_0251
0_0_43_1_0_081
0_0_43_1_0_0_041
0_0_43_1_0_0_0_021
0_0_43_1_0_0_0_0_011
0_0_43_1_0_0_0_0_0_001

Similar isolates (determined by classification schemes)

Some groups only contain this isolate. Show single groups

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

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroupFields
SublineagecgMLSTSingle-linkage500experimental15 (2 isolates)
SL: 171
SublineagecgMLSTSingle-linkage500experimental15 (2 isolates)
SL: 171
Genomic_clustercgMLSTSingle-linkage25experimental24 (1 isolate)

Schemes and loci

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Tools

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