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Full information on isolate CIP 52.204 (id:325)

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
325
isolate
CIP 52.204
aliases
ATCC 7380; SB3197
sender
Sylvain Brisse, Institut Pasteur, Paris, France
curator
Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
update history
719 updates show details
date entered
2009-02-10
datestamp
2022-11-03
taxonomic designation
K. pneumoniae
phylogroup from ST
Kp1 (7 loci)
QC status
0000
country
Unknown
source type
Unknown
host
Unknown
source details
Unknown
source lab
Institut Pasteur
K type
K2
K typing method
C-pattern
comments
Laboratory strain

Publications (2)

  • 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

Sequence bin

contigs
211
total length
5,083,391 bp
max length
161,844 bp
mean length
24,092 bp
N50
47,151
L50
33
N90
13,385
L90
108
N95
7,759
L95
132
%GC
57.73
Ns
0
gaps
0
loci tagged
4,138

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_S62962098

Analysis

rMLST species identification

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

Analysis performed: 2022-11-02

Kleborate

species
Klebsiella pneumoniae
species_match
strong
virulence_score
1
resistance_score
0
num_resistance_classes
1
num_resistance_genes
0
Yersiniabactin
ybt 9; ICEKp3 (truncated)
YbST
217-1LV
CbST
0
AbST
0
SmST
0
RmST
0
wzi
wzi2
K_locus
KL2
K_type
K2
K_locus_confidence
High
K_locus_identity
99.94%
K_locus_missing_genes
KL2_13
O_locus
O1/O2v1
O_type
O2a
O_locus_problems
none
O_locus_confidence
Very high
O_locus_identity
98.42%
Bla_chr
SHV-1^
Col_mutations
MgrB-49%
ybtS
5
ybtX
5
ybtQ
6
ybtP
5
ybtA
1
irp2
9
irp1
9
ybtU
4-39%
ybtT
5
ybtE
5
fyuA
4

Analysis performed: 2024-01-29; 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-linkage190experimental62 (61 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental69 (56 isolates)
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (13436 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (13415 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental62 (61 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental69 (56 isolates)

Schemes and loci

Tools

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