Full information on isolate CIP 52.210 T (id:333)
Projects
This isolate is a member of the following project:
- Public isolates
- This project contains the isolates that should be publicly available through the public access database.
Provenance/primary metadata
- id
- 333
- isolate
- CIP 52.210 T
- aliases
- CIP 52.210 T; SB3205
- sender
- Sylvain Brisse, Institut Pasteur, Paris, France
- curator
- Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
- update history
- 383 updates show details
- date entered
- 2009-02-10
- datestamp
- 2022-11-03
- taxonomic designation
- K. pneumoniae subsp. rhinoscleromatis
- phylogroup from ST
- Kp1 (7 loci)
- QC status
- 0000
- country
- Unknown
- source type
- Human
- host
- Human
- source details
- Unknown
- source lab
- Institut Pasteur
- duplicate number
- 7
- comments
- Type strain
Publication (1)
- Brisse S, Fevre C, Passet V, Issenhuth-Jeanjean S, Tournebize R, Diancourt L, Grimont P (2009). Virulent clones of Klebsiella pneumoniae: identification and evolutionary scenario based on genomic and phenotypic characterization. PLoS One 4:e4982
Sequence bin
- contigs
- 319
- total length
- 5,316,802 bp
- max length
- 229,289 bp
- mean length
- 16,668 bp
- N50
- 75,337
- L50
- 21
- N90
- 19,154
- L90
- 69
- N95
- 9,907
- L95
- 88
- %GC
- 57.23
- Ns
- 0
- gaps
- 0
- loci tagged
- 3,856
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 | 605 | 96 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| 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
- 4
- resistance_score
- 0
- num_resistance_classes
- 0
- num_resistance_genes
- 0
- Yersiniabactin
- ybt 11; ICE_rhino (truncated)
- YbST
- 307
- CbST
- 0
- Aerobactin
- iuc 4
- AbST
- 30
- SmST
- 0
- RmpADC
- rmp 4; chromosomal
- RmST
- 62
- wzi
- wzi135
- K_locus
- KL3
- K_type
- K3
- K_locus_problems
- ?
- K_locus_confidence
- Good
- K_locus_identity
- 99.49%
- O_locus
- O1/O2v2
- O_type
- O2afg
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 98.50%
- O_locus_missing_genes
- O1/O2v2_08_gmlC,O1/O2v2_09_gmlB
- Bla_chr
- SHV-206
- ybtS
- 6
- ybtX
- 6
- ybtQ
- 7
- ybtP
- 4
- ybtA
- 1
- irp2
- 10-11%
- irp1
- 10
- ybtU
- 5
- ybtT
- 6
- ybtE
- 6
- fyuA
- 5
- iucA
- 4
- iucB
- 5
- iucC
- 4
- iucD
- 4
- iutA
- 5
- iroC
- 7-4%
- rmpA
- 8
- rmpD
- 39
- rmpC
- 15
- spurious_virulence_hits
- iroD_9*-56%
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 scheme | Underlying scheme | Clustering method | Mismatch threshold | Status | Group |
|---|---|---|---|---|---|
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13437 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13416 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 730 (3 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 1200 (2 isolates) |
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 1 (13437 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 1 (13416 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 730 (3 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 1200 (2 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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