Full information on isolate L0506_kpn324 (id:21930)
Provenance/primary metadata
- id
- 21930
- isolate
- L0506_kpn324
- sender
- Meiling Jin, Emergency Response Team，PLA Center for Disease Control and Prevention，China
- curator
- Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
- update history
- 10 updates show details
- date entered
- 2022-05-18
- datestamp
- 2024-05-03
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2019
- city
- Beijing
- country
- China
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Human
- source lab
- Chinese People's Liberation Army Center for Disease Control and Prevention
Sequence bin
- contigs
- 63
- total length
- 5,369,280 bp
- max length
- 1,337,150 bp
- mean length
- 85,227 bp
- N50
- 374,640
- L50
- 4
- N90
- 100,420
- L90
- 15
- N95
- 86,401
- L95
- 18
- %GC
- 57.33
- Ns
- 0
- gaps
- 0
- loci tagged
- 693
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| MLST | 7 | 7 | 100 | |
| Ribosomal MLST | 53 | 53 | 100 | |
| scgMLST629_S | 629 | 624 | 99 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella pneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae | 100% |
Analysis performed: 2022-12-06
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- virulence_score
- 1
- resistance_score
- 0
- num_resistance_classes
- 0
- num_resistance_genes
- 0
- Yersiniabactin
- ybt unknown
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- K_locus
- KL174
- K_type
- unknown (KL174)
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 99.89%
- O_locus
- unknown (O1/O2v1)
- O_type
- unknown (O2a)
- O_locus_problems
- -*
- O_locus_confidence
- None
- O_locus_identity
- 71.67%
- O_locus_missing_genes
- O1/O2v1_03_wbbM,O1/O2v1_04_glf,O1/O2v1_05_wbbN,O1/O2v1_06_wbbO,O1/O2v1_07_kfoC
- Bla_chr
- SHV-28.v1*
- ybtS
- 3
- ybtX
- 3
- ybtQ
- 4*
- ybtP
- 3
- ybtA
- 3
- irp2
- 272*
- irp1
- 7*
- ybtU
- 3*
- ybtT
- 10
- ybtE
- 3*
- fyuA
- 143
Analysis performed: 2024-03-22; 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 scheme | Underlying scheme | Clustering method | Mismatch threshold | Status | Group |
|---|---|---|---|---|---|
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13436 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13415 isolates) |
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13436 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13415 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 2054 (1 isolate) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 3571 (1 isolate) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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