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Full information on isolate Ecl8 (id:1676)

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
1676
isolate
Ecl8
sender
Suzanne Bialek, AP-HP
curator
Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
update history
3244 updates show details
date entered
2013-06-21
datestamp
2026-02-27
taxonomic designation
K. pneumoniae
phylogroup from ST
Kp1 (7 loci)
QC status
0000
country
United Kingdom
continent
Europe
source type
Unknown
host
Unknown
source details
Unknown
accession number
CANH01

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

method
Unknown
contigs
54
total length
5,500,661 bp
max length
449,727 bp
mean length
101,865 bp
N50
279,996
L50
8
N90
52,921
L90
28
N95
40,802
L95
34
%GC
57.24
Ns
0
gaps
0
loci tagged
876

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_S62962899

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
3
resistance_score
0
num_resistance_classes
0
num_resistance_genes
0
YbST
0
CbST
0
Aerobactin
iuc 1
AbST
20
Salmochelin
iro 1
SmST
14
RmpADC
rmp 1; KpVP-1
RmST
26
rmpA2
rmpA2_5-54%
wzi
wzi72
K_locus
KL2
K_type
K2
K_locus_problems
none
K_locus_confidence
Very high
K_locus_identity
98.39%
O_locus
O1/O2v2
O_type
O1
O_locus_problems
none
O_locus_confidence
Very high
O_locus_identity
98.98%
Bla_chr
SHV-1^
iucA
1
iucB
1
iucC
1
iucD
1
iutA
3
iroB
1
iroC
1
iroD
1
iroN
3
rmpA
2
rmpD
2
rmpC
2

Analysis performed: 2025-10-17; Kleborate v2.3.2

Similar isolates (determined by LIN codes)

Scheme
scgMLST629_S
LIN code
0_0_390_0_0_1_0_0_0_0
Phylogroup
Kp1
Sublineage
SL375
Clonal group
CG375

Show all thresholds

PrefixThresholdMatching isolates
0_0_390_0_0_172
0_0_390_0_0_1_042
0_0_390_0_0_1_0_022
0_0_390_0_0_1_0_0_012
0_0_390_0_0_1_0_0_0_002
061041312
0_058541312
0_0_39019036
0_0_390_04336
0_0_390_0_0108
0_0_390_0_0_172
0_0_390_0_0_1_042
0_0_390_0_0_1_0_022
0_0_390_0_0_1_0_0_012
0_0_390_0_0_1_0_0_0_002

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 (16003 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (15951 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental41 (25 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental41 (25 isolates)
klebs_threshold10_v1.0scgMLST629_SSingle-linkage10experimental41 (8 isolates)
klebs_threshold7_v1.0scgMLST629_SSingle-linkage7experimental1787 (2 isolates)
klebs_threshold4_v1.0scgMLST629_SSingle-linkage4experimental2195 (2 isolates)
klebs_threshold2_v1.0scgMLST629_SSingle-linkage2experimental2738 (2 isolates)
klebs_threshold1_v1.0scgMLST629_SSingle-linkage1experimental3209 (2 isolates)
klebs_threshold0_v1.0scgMLST629_SSingle-linkage0experimental3969 (2 isolates)
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (16003 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (15951 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental41 (25 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental41 (25 isolates)
klebs_threshold10_v1.0scgMLST629_SSingle-linkage10experimental41 (8 isolates)
klebs_threshold7_v1.0scgMLST629_SSingle-linkage7experimental1787 (2 isolates)
klebs_threshold4_v1.0scgMLST629_SSingle-linkage4experimental2195 (2 isolates)
klebs_threshold2_v1.0scgMLST629_SSingle-linkage2experimental2738 (2 isolates)
klebs_threshold1_v1.0scgMLST629_SSingle-linkage1experimental3209 (2 isolates)
klebs_threshold0_v1.0scgMLST629_SSingle-linkage0experimental3969 (2 isolates)

Schemes and loci

Tools

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