Full information on isolate 0280/93 (id:1656)
Provenance/primary metadata
- id
- 1656
- isolate
- 0280/93
- strain designation
- B: P1.21,4: F5-2: ST-137 (cc41/44)
- country
- Czech Republic
- continent
- Europe
- region
- OC
- year
- 1993
- age yr
- 21
- age range
- 15-24
- sex
- male
- disease
- carrier
- source
- throat swab
- epidemiology
- carrier
- species
- Neisseria meningitidis
- serogroup
- B
- genogroup
- B
- capsule group
- B
- serotype
- 4
- sero subtype
- P1.4
Antimicrobial resistance
- cefotaxime mic
- =0.004 μg/mL
- cefotaxime SIR
- S
- penicillin mic
- =0.032 μg/mL
- penicillin SIR
- S
- sulphonamide mic
- =4 μg/mL
Tracking
- ENA run accession
- ERR137133 www.ebi.ac.uk
- sender
- Pavla Křížová, Pavla Křížová and Keith Jolley
- curator
- Keith Jolley, University of Oxford, UK (E-mail: keith.jolley@biology.ox.ac.uk)
- update history
- 110 updates show details
- date entered
- 2007-03-29
- datestamp
- 2021-06-18
Secondary metadata
Vaccines
- Bexsero reactivity
- exact match
notes - Bexsero notes
- NHBA_peptide: 2 is exact match to vaccine variant - peptide sequence match (PMID:27521232);
PorA_VR2: 4 is exact match to vaccine variant - peptide sequence match (PMID:27521232) - Trumenba reactivity
- cross-reactive
notes - Trumenba notes
- fHbp_peptide: 13 is cross-reactive to vaccine variant - data derived from MEASURE assays (PMID:29535195)
Publications (5)
Sequence bin
- contigs
- 246
- total length
- 2,195,996 bp
- max length
- 87,983 bp
- mean length
- 8,927 bp
- N50
- 37,569
- L50
- 20
- N90
- 6,690
- L90
- 71
- N95
- 2,869
- L95
- 95
- %GC
- 51.38
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,201
Annotation quality metrics
Scheme | Scheme loci | Designated loci | Annotation | |
---|---|---|---|---|
Score | Status | |||
rplF species | 1 | 1 | 100 | |
Finetyping antigens | 3 | 3 | 100 | |
Bexsero Antigen Sequence Typing (BAST) | 5 | 5 | 100 | |
MLST | 7 | 7 | 100 | |
Ribosomal MLST | 53 | 53 | 100 | |
N. meningitidis cgMLST v2 | 1422 | 1412 | 99 |
Analysis
rMLST species identification
Rank | Taxon | Taxonomy | Support | Matches |
---|---|---|---|---|
SPECIES | Neisseria meningitidis | Proteobacteria > Betaproteobacteria > Neisseriales > Neisseriaceae > Neisseria > Neisseria meningitidis | 100% |
Analysis performed: 2021-04-30
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 |
---|---|---|---|---|---|
Bact_rmlstc_20 | Ribosomal MLST | Single-linkage | 20 | experimental | 169 (25820 isolates) |
Bact_rmlstc_10 | Ribosomal MLST | Single-linkage | 10 | experimental | 476 (3832 isolates) |
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 698 (3506 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 799 (2989 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 921 (2680 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 1193 (438 isolates) |
Bact_rmlstc_20 | Ribosomal MLST | Single-linkage | 20 | experimental | 169 (25820 isolates) |
Bact_rmlstc_10 | Ribosomal MLST | Single-linkage | 10 | experimental | 476 (3832 isolates) |
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 698 (3506 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 799 (2989 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 921 (2680 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 1193 (438 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 2167 (1 isolate) |
Nm_cgc_200 | N. meningitidis cgMLST v2 | Single-linkage | 200 | experimental | 134 (1 isolate) |
Nm_cgc_100 | N. meningitidis cgMLST v2 | Single-linkage | 100 | experimental | 202 (1 isolate) |
Nm_cgc_50 | N. meningitidis cgMLST v2 | Single-linkage | 50 | experimental | 228 (1 isolate) |
Nm_cgc_25 | N. meningitidis cgMLST v2 | Single-linkage | 25 | experimental | 239 (1 isolate) |
Schemes and loci
- All loci
- Capsule
- Genetic Information Processing
- Genomic islands
- Lineage Schemes
- Metabolism
- Peptidoglycan Biosynthesis
- Pilin
- Typing
- Other schemes
- Loci not in schemes
Navigate and select schemes within tree to display allele designations
Tools
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