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Full information on isolate 02A029 (id:6)

Projects

This isolate is a member of the following projects:

Public isolates
This project contains the isolates that should be publicly available through the public access database.
published_genomes
All isolates with published genome imported in BIGSdb, and validated for scgMLST_S study
Bialek et al 2014_EID
167 isolates from Bialek et al. in which the scgMLST-634 scheme was defined (PMID: 25341126)

Provenance/primary metadata

id
6
isolate
02A029
aliases
02A029; SB14
sender
Sylvain Brisse, Institut Pasteur, Paris, France
curator
Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
update history
722 updates show details
date entered
2006-09-05
datestamp
2022-11-03
taxonomic designation
K. pneumoniae
phylogroup from ST
Kp1 (7 loci)
QC status
0000
isolation year
1997
city
Brussels
country
Belgium
continent
Europe
source type
Human
host
Human
source details
Blood
source lab
UMCU (Utrecht, NL)
K type
K1

Publications (3)

  • Bialek-Davenet S, Criscuolo A, Ailloud F, Passet V, Jones L, Delannoy-Vieillard AS, Garin B, Le Hello S, Arlet G, Nicolas-Chanoine MH, Decré D, Brisse S (2014). Genomic definition of hypervirulent and multidrug-resistant Klebsiella pneumoniae clonal groups. Emerg Infect Dis 20:1812-20
  • Brisse S, Fevre C, Passet V, Issenhuth-Jeanjean S, Tournebize R, Diancourt L, Grimont P (2009). Virulent clones of Klebsiella pneumoniae: identification and evolutionary scenario based on genomic and phenotypic characterization. PLoS One 4:e4982
  • Diancourt L, Passet V, Verhoef J, Grimont PA, Brisse S (2005). Multilocus sequence typing of Klebsiella pneumoniae nosocomial isolates. J Clin Microbiol 43:4178-82

Sequence bin

contigs
84
total length
5,330,811 bp
max length
335,192 bp
mean length
63,463 bp
N50
111,115
L50
15
N90
35,301
L90
45
N95
24,928
L95
53
%GC
57.55
Ns
0
gaps
0
loci tagged
4,207

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigs
Assembly size
Minimum N50
%GC

Annotation quality metrics

Scheme completion

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
MLST77100
Ribosomal MLST5353100
scgMLST629_S62962699

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Klebsiella pneumoniae Pseudomonadota > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae 100%

Analysis performed: 2024-02-03

Kleborate

species
Klebsiella pneumoniae
species_match
strong
virulence_score
2
resistance_score
0
num_resistance_classes
0
num_resistance_genes
0
Yersiniabactin
ybt 1; ICEKp10
YbST
47
Colibactin
clb 2
CbST
68
AbST
0
SmST
0
RmST
0
wzi
wzi1
K_locus
KL1
K_type
K1
K_locus_problems
none
K_locus_confidence
Very high
K_locus_identity
100.00%
O_locus
O1/O2v2
O_type
O1
O_locus_problems
?-
O_locus_confidence
Good
O_locus_identity
99.11%
O_locus_missing_genes
O1/O2v2_03_wbbM
Bla_chr
SHV-11.v1^
SHV_mutations
35Q
ybtS
2
ybtX
2
ybtQ
2
ybtP
2
ybtA
2
irp2
6
irp1
6
ybtU
2
ybtT
2
ybtE
2
fyuA
2
clbA
2
clbB
2
clbC
2
clbD
2
clbE
2
clbF
2
clbG
2
clbH
2
clbI
2
clbL
2
clbM
2
clbN
2
clbO
2
clbP
2
clbQ
2

Analysis performed: 2024-03-06; Kleborate v2.3.2

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 thresholdStatusGroup
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (13436 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (13415 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental6 (143 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental6 (143 isolates)
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (13436 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (13415 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental6 (143 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental6 (143 isolates)

Schemes and loci

Tools

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