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Full information on isolate OXC7926 (id:25055)

Projects

This isolate is a member of the following projects:

Oxfordshire Human Surveillance
Defra FSA

This isolate is part of the sentinel surveillance scheme for human Campylobacteriosis in Oxfordshire which is a collaborative project between The Wellcome Trust Sanger Institute and The University of Oxford, funded by The Department for Environment, Food and Rural Affairs and The Food Standards Agency.

Use of Oxfordshire sentinel surveillance data must be cited in any publication or presentation making use of it.

Oxfordshire Human Surveillance YR2
DEFRA/FSA Oxfordshire human surveillance isolates.
Oxfordshire Human Surveillance YR2_dedup
DEFRA/FSA Oxfordshire Human Surveillance Year 2 isolates_de-duplicated

Provenance/meta data

id
25055
isolate
OXC7926
aliases
ERR348931; H12971; SC_RUN_10315_7#70
country
UK
continent
Europe
region
Oxfordshire
year
2013
month
4
sex
female
disease
gastroenteritis
source
human stool
epidemiology
sporadic case
species
Campylobacter jejuni
ENA accession
ERR348931 www.ebi.ac.uk
sender
Alison Cody
curator
Alison Cody, Department of Zoology, Oxford University, UK (E-mail: Alison.Cody@zoo.ox.ac.uk)
update history
82 updates show details
date entered
2013-08-05
datestamp
2019-06-26

Phenotypic fields

fluoroquinolone genotypes 2
T86I

Publications (4)

  • Brown HL, Reuter M, Hanman K, Betts RP, van Vliet AH (2015). Prevention of biofilm formation and removal of existing biofilms by extracellular DNases of Campylobacter jejuni. PLoS One 10:e0121680
  • Cody AJ, Bray JE, Jolley KA, McCarthy ND, Maiden MCJ (2017). Core Genome Multilocus Sequence Typing Scheme for Stable, Comparative Analyses of Campylobacter jejuni and C. coli Human Disease Isolates. J Clin Microbiol 55:2086-2097
  • Cody AJ, McCarthy ND, Bray JE, Wimalarathna HM, Colles FM, Jansen van Rensburg MJ, Dingle KE, Waldenström J, Maiden MC (2015). Wild bird-associated Campylobacter jejuni isolates are a consistent source of human disease, in Oxfordshire, United Kingdom. Environ Microbiol Rep 7:782-8
  • Pearson BM, Louwen R, van Baarlen P, van Vliet AH (2015). Differential Distribution of Type II CRISPR-Cas Systems in Agricultural and Nonagricultural Campylobacter coli and Campylobacter jejuni Isolates Correlates with Lack of Shared Environments. Genome Biol Evol 7:2663-79

Sequence bin

contigs
49
total length
1,696,218 bp
max length
353,771 bp
mean length
34,617 bp
N50 contig number
5
N50 length (L50)
127,789
N90 contig number
12
N90 length (L90)
50,296
N95 contig number
14
N95 length (L95)
21,525
loci tagged
1,640
detailed breakdown
Display

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
Cjc_cgc_200C. jejuni / C. coli cgMLST v1.0Single-linkage200experimentalgroup: 1662 (544 isolates)
Cjc_cgc_100C. jejuni / C. coli cgMLST v1.0Single-linkage100experimentalgroup: 2745 (508 isolates)
Cjc_cgc_50C. jejuni / C. coli cgMLST v1.0Single-linkage50experimentalgroup: 4103 (275 isolates)
Cjc_cgc_25C. jejuni / C. coli cgMLST v1.0Single-linkage25experimentalgroup: 5957 (266 isolates)
Cjc_cgc_10C. jejuni / C. coli cgMLST v1.0Single-linkage10experimentalgroup: 9155 (242 isolates)
Cjc_cgc_5C. jejuni / C. coli cgMLST v1.0Single-linkage5experimentalgroup: 11423 (106 isolates)

Schemes and loci

Tools

Analysis: