Home About Us Contact What's New Register
Home>Organism>Klebsiella PasteurMLST>Isolate information
Help

Full information on isolate CH137 (id:1710)

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)
Isolates Excluded (failed QC)
KlebNET-GSP qc

Provenance/primary metadata

id
1710
isolate
CH137
alias
SB3464
sender
Suzanne Bialek, AP-HP
curator
Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
update history
73 updates show details
date entered
2013-07-17
datestamp
2022-11-03
taxonomic designation
K. pneumoniae subsp. ozaenae
phylogroup from ST
Kp1 (7 loci)
QC status
x100
isolation year
1999
city
Reims
country
France
continent
Europe
source type
Human
host
Human
source details
Respiratory
infection
Laryngeal scleroma
other source info
Nasal and pharyngeal swabs
source lab
C. De Champs, CHU Robert Debre, 51092 Reims
duplicate number
8

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
  • De Champs C, Vellin JF, Diancourt L, Brisse S, Kemeny JL, Gilain L, Mom T (2005). Laryngeal scleroma associated with Klebsiella pneumoniae subsp. ozaenae. J Clin Microbiol 43:5811-3

Sequence bin

contigs
564
total length
5,419,179 bp
max length
161,539 bp
mean length
9,609 bp
N50
28,034
L50
54
N90
5,917
L90
210
N95
3,269
L95
268
%GC
56.78
Ns
250
gaps
77
loci tagged
3,679

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigstoo many contigs (fail threshold: 501)
Assembly size
Minimum N50
%GC

Annotation quality metrics

Scheme completion

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
MLST77100
Ribosomal MLST5353100
scgMLST629_S62960095

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Klebsiella pneumoniae Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae 89%
SPECIES Klebsiella quasipneumoniae Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella quasipneumoniae 8%

Analysis performed: 2022-12-16

Kleborate

species
Klebsiella pneumoniae
species_match
strong
QC_warnings
ambiguous_bases
virulence_score
3
resistance_score
0
num_resistance_classes
0
num_resistance_genes
0
YbST
0
CbST
0
Aerobactin
iuc 2A
AbST
4-2LV
SmST
0
RmpADC
rmp 2A; plasmid/chr (incomplete) (truncated),-
RmST
1-2LV,0
wzi
wzi127
K_locus
unknown (KL4)
K_type
unknown (K4)
K_locus_problems
?-+
K_locus_confidence
Low
K_locus_identity
99.78%
K_locus_missing_genes
KL4_19_wzi,KL4_20_wza
O_locus
O1/O2v1
O_type
O2ac
O_locus_problems
none
O_locus_confidence
Very high
O_locus_identity
98.41%
spurious_resistance_hits
SHV-129?-65%
iucA
13
iucB
4
iucC
11
iucD
11
iutA
6
rmpA
19-47%,-
rmpD
20,20*-57%
rmpC
-,-
spurious_virulence_hits
iroB_2*-62%

Analysis performed: 2024-02-09; Kleborate v2.3.2

Schemes and loci

Tools

Export:
Third party:
Analysis: