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Full information on isolate CIP110288T (id:3886)

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
3886
isolate
CIP110288T
alias
SB4697
sender
Camille Blin, Institut Pasteur
curator
Auto Tagger
update history
23 updates show details
date entered
2016-04-14
datestamp
2023-01-20
taxonomic designation
K. quasipneumoniae subsp. similipneumoniae
phylogroup from ST
Kp4 (7 loci)
QC status
0000
country
China
continent
Asia
source type
Environment
host
Environment
source details
Unknown
other source info
Xu et al 2010 Description of Klebsiella alba

Publications (3)

  • 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:
  • Xu J, Li W, Chen X, Zhou Y (2010). Klebsiella alba sp. nov., a novel pesticide-tolerant bacterium from a heavily polluted environment. J Gen Appl Microbiol 56:241-7

Sequence bin

contigs
33
total length
5,359,819 bp
max length
1,186,381 bp
mean length
162,419 bp
N50
459,562
L50
4
N90
118,546
L90
12
N95
83,710
L95
14
%GC
57.85
Ns
0
gaps
0
loci tagged
3,718

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_S62961096

Analysis

rMLST species identification

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

Analysis performed: 2022-12-01

Kleborate

species
Klebsiella quasipneumoniae subsp. similipneumoniae
species_match
strong
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
wzi407
K_locus
KL57
K_type
K57
K_locus_problems
?-*
K_locus_confidence
Good
K_locus_identity
96.31%
K_locus_missing_genes
KL57_16_manC
O_locus
O3/O3a
O_type
O3/O3a
O_locus_problems
?-
O_locus_confidence
Good
O_locus_identity
95.98%
O_locus_missing_genes
O3/O3a_01_manC
Bla_chr
OKP-B-5^

Analysis performed: 2024-02-26; 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-linkage610experimental1 (13436 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (13415 isolates)
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (13436 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental1 (13415 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental23 (1 isolate)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental23 (1 isolate)
klebs_threshold10_v1.0scgMLST629_SSingle-linkage10experimental23 (1 isolate)
klebs_threshold7_v1.0scgMLST629_SSingle-linkage7experimental23 (1 isolate)
klebs_threshold4_v1.0scgMLST629_SSingle-linkage4experimental23 (1 isolate)
klebs_threshold2_v1.0scgMLST629_SSingle-linkage2experimental23 (1 isolate)
klebs_threshold1_v1.0scgMLST629_SSingle-linkage1experimental23 (1 isolate)
klebs_threshold0_v1.0scgMLST629_SSingle-linkage0experimental23 (1 isolate)

Schemes and loci

Tools

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