Full information on isolate OX9932099 (id:918)
Projects
This isolate is a member of the following project:
- UKMenCar1
- United Kingdom Meningococcal Carriage Study - 1999
Provenance/primary metadata
- id
- 918
- isolate
- OX9932099
- strain designation
- B: P1.7-1,1: F3-3: ST-1676 (cc41/44)
- country
- UK [England]
- continent
- Europe
- region
- South East
- year
- 1999
- age yr
- 17
- 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
- P1.1,7
- comments
- Study Centre: Oxford
Tracking
- sender
- Ana-Belen Ibarz-Pavon, Centre de Recerca en Salut Internacional de Barcelona (CRESIB) & Centro de Investigacao em Saude da Manhica (CISM)
- curator
- Auto Tagger
- update history
- 123 updates show details
- date entered
- 2002-03-18
- datestamp
- 2022-04-16
Secondary metadata
Risk factors
- UK school year
- other
- persons in household
- 4
- antibiotic use
- no
- cigarettes per day
- 0
- passive smoking
- yes [undefined]
- pubs clubs per week
- 4-5
- persons kissed past week
- 0
Vaccines
- Bexsero reactivity
- insufficient data
notes - Trumenba reactivity
- cross-reactive
notes - Trumenba notes
- fHbp_peptide: 19 is cross-reactive to vaccine variant - data derived from MEASURE assays (PMID:29535195), and SBA assays (PMID:22569484, PMID:22718089, PMID:22871351, PMID:23114369, PMID:23352429, PMID:26407272, PMID:26707218, PMID:26803328, PMID:26835974, PMID:26974889, PMID:27745812, PMID:27846061, PMID:28196734, PMID:28566335, PMID:29236639)
Publication (1)
- Spinsanti M, Brignoli T, Bodini M, Fontana LE, De Chiara M, Biolchi A, Muzzi A, Scarlato V, Delany I (2021). Deconvolution of intergenic polymorphisms determining high expression of Factor H binding protein in meningococcus and their association with invasive disease. PLoS Pathog 17:e1009461
Sequence bin
- contigs
- 191
- total length
- 2,112,761 bp
- max length
- 92,973 bp
- mean length
- 11,062 bp
- N50
- 36,563
- L50
- 17
- N90
- 9,421
- L90
- 58
- N95
- 3,965
- L95
- 75
- %GC
- 51.65
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,194
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 v1.0 | 1605 | 1577 | 98 |
Analysis
rMLST species identification
Rank | Taxon | Taxonomy | Support | Matches |
---|---|---|---|---|
SPECIES | Neisseria meningitidis | Proteobacteria > Betaproteobacteria > Neisseriales > Neisseriaceae > Neisseria > Neisseria meningitidis | 100% |
Analysis performed: 2021-03-31
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 (25037 isolates) |
Bact_rmlstc_10 | Ribosomal MLST | Single-linkage | 10 | experimental | 476 (3700 isolates) |
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 698 (3392 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 799 (2884 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 921 (2564 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 1193 (426 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 1696 (85 isolates) |
Bact_rmlstc_20 | Ribosomal MLST | Single-linkage | 20 | experimental | 169 (25037 isolates) |
Bact_rmlstc_10 | Ribosomal MLST | Single-linkage | 10 | experimental | 476 (3700 isolates) |
Bact_rmlstc_5 | Ribosomal MLST | Single-linkage | 5 | experimental | 698 (3392 isolates) |
Bact_rmlstc_4 | Ribosomal MLST | Single-linkage | 4 | experimental | 799 (2884 isolates) |
Bact_rmlstc_3 | Ribosomal MLST | Single-linkage | 3 | experimental | 921 (2564 isolates) |
Bact_rmlstc_2 | Ribosomal MLST | Single-linkage | 2 | experimental | 1193 (426 isolates) |
Bact_rmlstc_1 | Ribosomal MLST | Single-linkage | 1 | experimental | 1696 (85 isolates) |
Nm_cgc_200 | N. meningitidis cgMLST v1.0 | Single-linkage | 200 | experimental | 28 (1 isolate) |
Nm_cgc_100 | N. meningitidis cgMLST v1.0 | Single-linkage | 100 | experimental | 45 (1 isolate) |
Nm_cgc_50 | N. meningitidis cgMLST v1.0 | Single-linkage | 50 | experimental | 53 (1 isolate) |
Nm_cgc_25 | N. meningitidis cgMLST v1.0 | Single-linkage | 25 | experimental | 53 (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
Export:
Analysis: