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Full information on isolate 8454 (id:32979)

Provenance/meta data

id
32979
isolate
8454
country
Portugal
continent
Europe
year
2002
serotype
23F
age yr
72
diagnosis
pneumonia
host
human
source
sputum
penicillin
1
erythromycin
64
tetracycline
32
ENA accession
ERR016735 www.ebi.ac.uk
rMLST database accession
39952
sender
Angela Brueggemann, University of Oxford, UK
curator
Melissa Jansen van Rensburg, University of Oxford, UK (E-mail: Melissa.JansenvanRensburg@ndph.ox.ac.uk)
update history
17 updates show details
date entered
2016-07-13
datestamp
2020-03-12

Publications (4)

  • Bogaardt C, van Tonder AJ, Brueggemann AB (2015). Genomic analyses of pneumococci reveal a wide diversity of bacteriocins - including pneumocyclicin, a novel circular bacteriocin. BMC Genomics 16:554
  • Brueggemann AB, Harrold CL, Rezaei Javan R, van Tonder AJ, McDonnell AJ, Edwards BA (2017). Pneumococcal prophages are diverse, but not without structure or history. Sci Rep 7:42976
  • Croucher NJ, Harris SR, Fraser C, Quail MA, Burton J, van der Linden M, McGee L, von Gottberg A, Song JH, Ko KS, Pichon B, Baker S, Parry CM, Lambertsen LM, Shahinas D, Pillai DR, Mitchell TJ, Dougan G, Tomasz A, Klugman KP, Parkhill J, Hanage WP, Bentley SD (2011). Rapid pneumococcal evolution in response to clinical interventions. Science 331:430-4
  • Rezaei Javan R, van Tonder AJ, King JP, Harrold CL, Brueggemann AB (2018). Genome Sequencing Reveals a Large and Diverse Repertoire of Antimicrobial Peptides. Front Microbiol 9:2012

Sequence bin

contigs
269
total length
2,116,487 bp
max length
74,653 bp
mean length
7,868 bp
N50 contig number
28
N50 length (L50)
23,430
N90 contig number
99
N90 length (L90)
5,035
N95 contig number
127
N95 length (L95)
2,813
loci tagged
1,401
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
Sp_cgc_1000cgMLSTSingle-linkage1000experimentalgroup: 7 (4508 isolates)
Sp_cgc_500cgMLSTSingle-linkage500experimentalgroup: 2 (87 isolates)
Sp_cgc_400cgMLSTSingle-linkage400experimentalgroup: 2 (87 isolates)
Sp_cgc_300cgMLSTSingle-linkage300experimentalgroup: 2 (86 isolates)
Sp_cgc_200cgMLSTSingle-linkage200experimentalgroup: 2 (85 isolates)
Sp_cgc_100cgMLSTSingle-linkage100experimentalgroup: 2 (78 isolates)
Sp_cgc_50cgMLSTSingle-linkage50experimentalgroup: 2 (65 isolates)

Schemes and loci

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