edoc

Longitudinal tracking and quantification of individual Plasmodium falciparum clones in complex infections

Lerch, Anita and Koepfli, Cristian and Hofmann, Natalie E. and Kattenberg, Johanna H. and Rosanas-Urgell, Anna and Betuela, Inoni and Mueller, Ivo and Felger, Ingrid. (2019) Longitudinal tracking and quantification of individual Plasmodium falciparum clones in complex infections. Scientific Reports, 9. p. 3333.

[img] PDF - Published Version
Available under License CC BY (Attribution).

1156Kb

Official URL: https://edoc.unibas.ch/69763/

Downloads: Statistics Overview

Abstract

Longitudinal tracking of individual Plasmodium falciparum strains in multi-clonal infections is essential for investigating infection dynamics of malaria. The traditional genotyping techniques did not permit tracking changes in individual clone density during persistent natural infections. Amplicon deep sequencing (Amp-Seq) offers a tool to address this knowledge gap. The sensitivity of Amp-Seq for relative quantification of clones was investigated using three molecular markers, ama1-D2, ama1-D3, and cpmp. Amp-Seq and length-polymorphism based genotyping were compared for their performance in following minority clones in longitudinal samples from Papua New Guinea. Amp-Seq markers were superior to length-polymorphic marker msp2 in detecting minority clones (sensitivity Amp-Seq: 95%, msp2: 85%). Multiplicity of infection (MOI) by Amp-Seq was 2.32 versus 1.73 for msp2. The higher sensitivity had no effect on estimates of force of infection because missed minority clones were detected in preceding or succeeding bleeds. Individual clone densities were tracked longitudinally by Amp-Seq despite MOI > 1, thus providing an additional parameter for investigating malaria infection dynamics. Amp-Seq based genotyping of longitudinal samples improves detection of minority clones and estimates of MOI. Amp-Seq permits tracking of clone density over time to study clone competition or the dynamics of specific, i.e. resistance-associated genotypes.
Faculties and Departments:09 Associated Institutions > Swiss Tropical and Public Health Institute (Swiss TPH)
09 Associated Institutions > Swiss Tropical and Public Health Institute (Swiss TPH) > Department of Medical Parasitology and Infection Biology > Molecular Diagnostics (Felger)
UniBasel Contributors:Lerch, Anita AL and Hofmann, Natalie and Felger, Ingrid
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:Nature Publishing Group
e-ISSN:2045-2322
Note:Publication type according to Uni Basel Research Database: Journal article
Language:English
Identification Number:
Last Modified:12 Mar 2019 13:20
Deposited On:12 Mar 2019 13:20

Repository Staff Only: item control page