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dc.contributor.authorSarah Auburnen_US
dc.contributor.authorSusana Campinoen_US
dc.contributor.authorOlivo Miottoen_US
dc.contributor.authorAbdoulaye A. Djimdeen_US
dc.contributor.authorIssaka Zongoen_US
dc.contributor.authorMagnus Manskeen_US
dc.contributor.authorGareth Maslenen_US
dc.contributor.authorValentina Manganoen_US
dc.contributor.authorDaniel Alcocken_US
dc.contributor.authorBronwyn MacInnisen_US
dc.contributor.authorKirk A. Rocketten_US
dc.contributor.authorTaane G. Clarken_US
dc.contributor.authorOgobara K. Doumboen_US
dc.contributor.authorJean Bosco Ouédraogoen_US
dc.contributor.authorDominic P. Kwiatkowskien_US
dc.contributor.otherWellcome Trust Sanger Instituteen_US
dc.contributor.otherMenzies School of Health Researchen_US
dc.contributor.otherUniversity of Oxforden_US
dc.contributor.otherMahidol Universityen_US
dc.contributor.otherUniversity of Bamako Faculty of Medicine, Pharmacy and Odonto-Stomatologyen_US
dc.contributor.otherInstitut de Recherche en Sciences de la Santéen_US
dc.contributor.otherUniversita degli Studi di Roma La Sapienzaen_US
dc.contributor.otherWellcome Trust Centre for Human Geneticsen_US
dc.contributor.otherLondon School of Hygiene & Tropical Medicineen_US
dc.identifier.citationPLoS ONE. Vol.7, No.2 (2012)en_US
dc.description.abstractOur understanding of the composition of multi-clonal malarial infections and the epidemiological factors which shape their diversity remain poorly understood. Traditionally within-host diversity has been defined in terms of the multiplicity of infection (MOI) derived by PCR-based genotyping. Massively parallel, single molecule sequencing technologies now enable individual read counts to be derived on genome-wide datasets facilitating the development of new statistical approaches to describe within-host diversity. In this class of measures the F WS metric characterizes within-host diversity and its relationship to population level diversity. Utilizing P. falciparum field isolates from patients in West Africa we here explore the relationship between the traditional MOI and F WS approaches. F WS statistics were derived from read count data at 86,158 SNPs in 64 samples sequenced on the Illumina GA platform. MOI estimates were derived by PCR at the msp-1 and -2 loci. Significant correlations were observed between the two measures, particularly with the msp-1 locus (P = 5.92×10 -5 ). The F WS metric should be more robust than the PCR-based approach owing to reduced sensitivity to potential locus-specific artifacts. Furthermore the F WS metric captures information on a range of parameters which influence out-crossing risk including the number of clones (MOI), their relative proportions and genetic divergence. This approach should provide novel insights into the factors which correlate with, and shape within-host diversity. © 2012 Auburn et al.en_US
dc.rightsMahidol Universityen_US
dc.subjectAgricultural and Biological Sciencesen_US
dc.subjectBiochemistry, Genetics and Molecular Biologyen_US
dc.titleCharacterization of within-host plasmodium falciparum diversity using next-generation sequence dataen_US
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