Full information on isolate 10982 (id:1507)
Projects
Provenance/primary metadata
- id
- 1507
- isolate
- 10982
- alias
- 252
- sender
- Licheng Zhao, University of Maryland School of Medicine,Baltimore
- curator
- Auto Tagger
- update history
- 24 updates show details
- date entered
- 2013-02-28
- datestamp
- 2023-01-20
- taxonomic designation
- K. quasivariicola
- phylogroup from ST
- Kp6 (7 loci)
- QC status
- 0000
- isolation year
- 2005
- city
- Baltimore
- country
- USA
- continent
- North America
- source type
- Human
- host
- Human
- source details
- Intestinal
- other source info
- Perirectal
- comments
- Kp6
- accession number
- AKYX01
Publications (2)
- Hazen TH, Zhao L, Sahl JW, Robinson G, Harris AD, Rasko DA, Johnson JK (2014). Characterization of Klebsiella sp. strain 10982, a colonizer of humans that contains novel antibiotic resistance alleles and exhibits genetic similarities to plant and clinical Klebsiella isolates. Antimicrob Agents Chemother 58:1879-88
- 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
- 218
- total length
- 6,082,330 bp
- max length
- 228,303 bp
- mean length
- 27,901 bp
- N50
- 63,592
- L50
- 28
- N90
- 17,069
- L90
- 106
- N95
- 8,583
- L95
- 130
- %GC
- 56.61
- Ns
- 0
- gaps
- 0
- loci tagged
- 3,633
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 quasivariicola | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella quasivariicola | 100% |
Analysis performed: 2022-12-01
Kleborate
- species
- Klebsiella quasivariicola
- species_match
- strong
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 6
- num_resistance_genes
- 11
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- K_locus
- KL141
- K_type
- unknown (KL141)
- K_locus_problems
- ?*
- K_locus_confidence
- Good
- K_locus_identity
- 97.23%
- O_locus
- O1/O2v2
- O_type
- O2afg
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 96.54%
- AGly_acquired
- aadA2;ant(2'')-Ia
- MLS_acquired
- mphE.v2;msrE
- Phe_acquired
- catB11;catB3.v2;cmlA6*
- Sul_acquired
- sul1
- Tmt_acquired
- dfrA19*
- Bla_acquired
- CARB-2.v1^;FOX-10
- Bla_chr
- LEN-26
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 | 3 (15 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 3 (15 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 9 (2 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 9 (2 isolates) |
| klebs_threshold10_v1.0 | scgMLST629_S | Single-linkage | 10 | experimental | 9 (2 isolates) |
| klebs_threshold7_v1.0 | scgMLST629_S | Single-linkage | 7 | experimental | 9 (2 isolates) |
| klebs_threshold4_v1.0 | scgMLST629_S | Single-linkage | 4 | experimental | 9 (2 isolates) |
| klebs_threshold2_v1.0 | scgMLST629_S | Single-linkage | 2 | experimental | 9 (2 isolates) |
| klebs_threshold1_v1.0 | scgMLST629_S | Single-linkage | 1 | experimental | 9 (2 isolates) |
| klebs_threshold0_v1.0 | scgMLST629_S | Single-linkage | 0 | experimental | 9 (2 isolates) |
| klebs_species_v1.0 | scgMLST629_S | Single-linkage | 610 | experimental | 3 (15 isolates) |
| klebs_subspecies_v1.0 | scgMLST629_S | Single-linkage | 585 | experimental | 3 (15 isolates) |
| klebs_sublineage_v1.0 | scgMLST629_S | Single-linkage | 190 | experimental | 9 (2 isolates) |
| klebs_clonalgroup_v1.0 | scgMLST629_S | Single-linkage | 43 | experimental | 9 (2 isolates) |
| klebs_threshold10_v1.0 | scgMLST629_S | Single-linkage | 10 | experimental | 9 (2 isolates) |
| klebs_threshold7_v1.0 | scgMLST629_S | Single-linkage | 7 | experimental | 9 (2 isolates) |
| klebs_threshold4_v1.0 | scgMLST629_S | Single-linkage | 4 | experimental | 9 (2 isolates) |
| klebs_threshold2_v1.0 | scgMLST629_S | Single-linkage | 2 | experimental | 9 (2 isolates) |
| klebs_threshold1_v1.0 | scgMLST629_S | Single-linkage | 1 | experimental | 9 (2 isolates) |
| klebs_threshold0_v1.0 | scgMLST629_S | Single-linkage | 0 | experimental | 9 (2 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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