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Full information on isolate 08A119 (id:1508)

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
Hennart et al. 2022_MBE
Reference Genomes for LINcodes (Table S9) (PMID: 35700230)

Provenance/primary metadata

id
1508
isolate
08A119
alias
SB33
sender
Sylvain Brisse, Institut Pasteur, Paris, France
curator
Auto Tagger
update history
1321 updates show details
date entered
2013-03-20
datestamp
2023-01-20
taxonomic designation
K. quasivariicola
phylogroup from ST
Kp6 (7 loci)
QC status
0000
isolation year
1997
city
Dusseldorf
country
Germany
continent
Europe
source type
Human
host
Human
source details
Blood
source lab
UMCU (Utrecht, NL)
comments
Kp6 type alleles

Publications (2)

  • Blin C, Passet V, Touchon M, Rocha EPC, Brisse S (2017). Metabolic diversity of the emerging pathogenic lineages of Klebsiella pneumoniae. Environ Microbiol 19:1881-1898
  • Hennart M, Guglielmini J, Bridel S, Maiden MCJ, Jolley KA, Criscuolo A, Brisse S (2022). A Dual Barcoding Approach to Bacterial Strain Nomenclature: Genomic Taxonomy of Klebsiella pneumoniae Strains. Mol Biol Evol 39:

Sequence bin

contigs
1
length
5,718,308 bp
%GC
56.87
Ns
19600
gaps
196
loci tagged
3,737

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_S62960796

Analysis

rMLST species identification

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

Analysis performed: 2022-12-01

Kleborate

species
Klebsiella quasivariicola
species_match
strong
QC_warnings
ambiguous_bases
virulence_score
0
resistance_score
0
num_resistance_classes
0
num_resistance_genes
0
YbST
0
CbST
0
AbST
0
SmST
0
RmST
0
wzi
wzi158
K_locus
KL51
K_type
K51
K_locus_problems
none
K_locus_confidence
Very high
K_locus_identity
97.46%
O_locus
O1/O2v2
O_type
O1
O_locus_problems
none
O_locus_confidence
Very high
O_locus_identity
96.53%
Bla_chr
LEN-26*
spurious_resistance_hits
fosA7*?-0%

Analysis performed: 2023-07-21; Kleborate v2.3.2

Similar isolates (determined by classification schemes)

Some groups only contain this isolate. Show single groups

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-linkage610experimental3 (15 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental3 (15 isolates)
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental3 (15 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental3 (15 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental10 (1 isolate)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental10 (1 isolate)
klebs_threshold10_v1.0scgMLST629_SSingle-linkage10experimental10 (1 isolate)
klebs_threshold7_v1.0scgMLST629_SSingle-linkage7experimental10 (1 isolate)
klebs_threshold4_v1.0scgMLST629_SSingle-linkage4experimental10 (1 isolate)
klebs_threshold2_v1.0scgMLST629_SSingle-linkage2experimental10 (1 isolate)
klebs_threshold1_v1.0scgMLST629_SSingle-linkage1experimental10 (1 isolate)
klebs_threshold0_v1.0scgMLST629_SSingle-linkage0experimental10 (1 isolate)

Schemes and loci

Tools

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