Rosado Jason, Han Jiru, Obadia Thomas, Munro Jacob, Traore Zeinabou, Schoffer Kael, Brewster Jessica, Bourke Caitlin, Vinetz Joseph M, White Michael, Bahlo Melanie, Gamboa Dionicia, Mueller Ivo, Ruybal-Pesántez Shazia
Institut Pasteur, Université Paris Cité, Infectious Diseases Epidemiology and Analytics G5 Unit, Institut Pasteur, Paris, France.
Université Paris Cité, Institut de Recherche pour le Développement, MERIT, Paris, France.
medRxiv. 2025 Jun 13:2025.05.26.25327775. doi: 10.1101/2025.05.26.25327775.
infections are characterised by recurrent bouts of blood-stage parasitaemia. Understanding the genetic relatedness of recurrences can distinguish whether these are caused by relapse, reinfection, or recrudescence, which is critical to understand treatment efficacy and transmission dynamics. We developed PvAmpseq, an amplicon sequencing assay targeting 11 SNP-rich regions of the genome. PvAmpSeq was validated on field isolates from a clinical trial in the Solomon Islands and a longitudinal observational cohort in Peru, and statistical models were applied for genetic classification of infection pairs. In the Solomon Islands trial, where participants received antimalarials at baseline, half of the recurrent infections were caused by parasites with >50% relatedness to the baseline infection, with statistical models classifying 25% and 25% as probable relapses and recrudescences, respectively. In the Peruvian cohort, 26% of recurrences were likely relapses. PvAmpSeq provides high-resolution genotyping to characterise recurrences, offering insights into transmission and treatment outcomes.
感染的特征是反复出现血期寄生虫血症。了解复发的遗传相关性可以区分这些复发是由复发、再感染还是再燃引起的，这对于理解治疗效果和传播动态至关重要。我们开发了PvAmpseq，这是一种针对基因组11个富含单核苷酸多态性（SNP）区域的扩增子测序检测方法。PvAmpSeq在来自所罗门群岛一项临床试验和秘鲁一个纵向观察队列的现场分离株上得到验证，并应用统计模型对感染对进行基因分类。在所罗门群岛的试验中，参与者在基线时接受抗疟药治疗，一半的复发性感染是由与基线感染相关性>50%的寄生虫引起的，统计模型分别将25%和25%分类为可能的复发和再燃。在秘鲁队列中，26%的复发可能是复发。PvAmpSeq提供高分辨率基因分型以表征复发情况，为传播和治疗结果提供见解。
