Understanding pneumococcal serotype 1 biology through population genomic analysis.

  • Chaguza, Chrispin
  • Cornick, Jennifer E
  • Harris, Simon R
  • Andam, Cheryl P
  • Bricio-Moreno, Laura
  • Yang, Marie
  • Yalcin, Feyruz
  • Ousmane, Sani
  • Govindpersad, Shanil
  • Senghore, Madikay
  • Ebruke, Chinelo
  • Du Plessis, Mignon
  • Kiran, Anmol M
  • Pluschke, Gerd
  • Sigauque, Betuel
  • McGee, Lesley
  • Klugman, Keith P
  • Turner, Paul
  • Corander, Jukka
  • Parkhill, Julian
  • Collard, Jean-Marc
  • Antonio, Martin
  • von Gottberg, Anne
  • Heyderman, Robert S
  • French, Neil
  • Kadioglu, Aras
  • Hanage, William P
  • Everett, Dean B
  • Bentley, Stephen D
  • PAGe Consortium
Publication date
November 2016
Publisher
Springer Science and Business Media LLC

Abstract

BACKGROUND: Pneumococcus kills over one million children annually and over 90 % of these deaths occur in low-income countries especially in Sub-Saharan Africa (SSA) where HIV exacerbates the disease burden. In SSA, serotype 1 pneumococci particularly the endemic ST217 clone, causes majority of the pneumococcal disease burden. To understand the evolution of the virulent ST217 clone, we analysed ST217 whole genomes from isolates sampled from African and Asian countries. METHODS: We analysed 226 whole genome sequences from the ST217 lineage sampled from 9 African and 4 Asian countries. We constructed a whole genome alignment and used it for phylogenetic and coalescent analyses. We also screened the genomes to determine presence of antibiotic r...

Extracted data

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