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Full information on isolate MET1_63/88063 (id:1515)

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
1515
isolate
MET1_63/88063
aliases
MET1_63/88063; SB3380
sender
Suzanne Bialek, AP-HP
curator
Auto Tagger
update history
727 updates show details
date entered
2013-03-29
datestamp
2023-01-20
taxonomic designation
K. pneumoniae
phylogroup from ST
Kp1 (7 loci)
QC status
0000
isolation year
2004
city
Nantes
country
France
continent
Europe
source type
Animal
host
Horse
source details
Unknown
infection
Metritis
other source info
Mare
source lab
Nat. Veterinary School, Nantes, France
K type
K1

Publication (1)

  • 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

Sequence bin

contigs
275
total length
5,550,735 bp
max length
150,392 bp
mean length
20,185 bp
N50
39,310
L50
43
N90
10,298
L90
143
N95
6,706
L95
176
%GC
57.21
Ns
0
gaps
0
loci tagged
3,996

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_S62961597

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
5
resistance_score
0
num_resistance_classes
3
num_resistance_genes
4
Yersiniabactin
ybt 1; ICEKp10
YbST
334
Colibactin
clb 2 (truncated)
CbST
29-1LV
Aerobactin
iuc 1
AbST
1
Salmochelin
iro 1
SmST
2
RmpADC
rmp 1; KpVP-1
RmST
26
wzi
wzi1
K_locus
KL1
K_type
K1
K_locus_problems
?-+
K_locus_confidence
Good
K_locus_identity
99.99%
K_locus_missing_genes
KL1_03_wzi
O_locus
O1/O2v2
O_type
O1
O_locus_problems
none
O_locus_confidence
Very high
O_locus_identity
99.13%
AGly_acquired
aadA^;aph3-Ia.v1^
Sul_acquired
sul1
Tet_acquired
tet(C)
Bla_chr
SHV-11.v1^
SHV_mutations
35Q
ybtS
2
ybtX
2
ybtQ
2
ybtP
2
ybtA
2
irp2
12
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
3
clbI
2
clbL
2*-0%
clbM
2
clbN
2
clbO
2
clbP
2
clbQ
2
iucA
1
iucB
1
iucC
1
iucD
1
iutA
1
iroB
1
iroC
4
iroD
1
iroN
1
rmpA
2
rmpD
2
rmpC
2
spurious_virulence_hits
rmpA_56*-0%;rmpA_54*-49%

Analysis performed: 2023-07-21; 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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