Full information on isolate SB2110 (id:3884)
Projects
Provenance/primary metadata
- id
- 3884
- isolate
- SB2110
- sender
- Camille Blin, Institut Pasteur
- curator
- Auto Tagger
- update history
- 29 updates show details
- date entered
- 2016-04-14
- datestamp
- 2023-01-20
- taxonomic designation
- K. quasipneumoniae subsp. quasipneumoniae
- phylogroup from ST
- Kp2 (7 loci)
- QC status
- 0000
- country
- Germany
- continent
- Europe
- source type
- Environment
- host
- Environment
- source details
- Unknown
- other source info
- From Podschun et al 1991
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:
- Podschun R, Teske E, Ullmann U (1991). Serum resistance properties of Klebsiella pneumoniae and K. oxytoca isolated from different sources. Zentralbl Hyg Umweltmed 192:279-85
Sequence bin
- contigs
- 176
- total length
- 5,840,959 bp
- max length
- 395,954 bp
- mean length
- 33,188 bp
- N50
- 97,611
- L50
- 16
- N90
- 24,943
- L90
- 58
- N95
- 9,306
- L95
- 79
- %GC
- 56.97
- Ns
- 0
- gaps
- 0
- loci tagged
- 3,672
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 | 607 | 96 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella quasipneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella quasipneumoniae | 100% |
Analysis performed: 2022-12-01
Kleborate
- species
- Klebsiella quasipneumoniae subsp. quasipneumoniae
- species_match
- strong
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 3
- num_resistance_genes
- 2
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi84
- K_locus
- unknown (KL72)
- K_type
- unknown (K72)
- K_locus_problems
- ?-+*
- K_locus_confidence
- Low
- K_locus_identity
- 95.65%
- K_locus_missing_genes
- KL72_02_cpsACP,KL72_12_wzy
- O_locus
- O1/O2v3
- O_type
- O2a
- O_locus_problems
- *
- O_locus_confidence
- High
- O_locus_identity
- 93.23%
- AGly_acquired
- aadA2
- Sul_acquired
- sul1
- Bla_chr
- OKP-A-11^
- Omp_mutations
- OmpK35-0%
- Flq_mutations
- GyrA-87N
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 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_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 21 (16 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 21 (5 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 | 21 (16 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 21 (5 isolates) |
| klebs_threshold10_v1.0 | scgMLST629_S | Single-linkage | 10 | experimental | 21 (1 isolate) |
| klebs_threshold7_v1.0 | scgMLST629_S | Single-linkage | 7 | experimental | 21 (1 isolate) |
| klebs_threshold4_v1.0 | scgMLST629_S | Single-linkage | 4 | experimental | 21 (1 isolate) |
| klebs_threshold2_v1.0 | scgMLST629_S | Single-linkage | 2 | experimental | 21 (1 isolate) |
| klebs_threshold1_v1.0 | scgMLST629_S | Single-linkage | 1 | experimental | 21 (1 isolate) |
| klebs_threshold0_v1.0 | scgMLST629_S | Single-linkage | 0 | experimental | 21 (1 isolate) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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