Applying the varcode for malaria outbreak surveillance in Ecuador

A collaboration with Fabián Sáenz, Dan Larremore, Erik Johnson and the Day Lab

This collaborative project aims to describe the genomic epidemiology of continued disease transmission of P. falciparum in Ecuador after considerable progress towards elimination in previous years. By applying novel genetic tools, we aim to better understand factors underlying continued transmission after an outbreak in Ecuador by investigating parasite microevolution and transmission dynamics to inform whether malaria cases in Ecuador are locally-acquired or imported from neighboring countries.

We applied the varcode, a genotyping tool used to fingerprint variant antigen genes (see below for a schematic diagram of our approach).

Below you can see a spatiotemporal genetic relatedness network depicting the transmission dynamics of P. falciparum clinical cases during and after the outbreak, for more details check out our pre-print (

Posted on:
January 1, 0001
1 minute read, 119 words
Genomic surveillance Epidemiology Genomics
genomic surveillance genomics epidemiology
See Also:
Understanding malaria infection dynamics
Genetic epidemiology of the Plasmodium falciparum reservoir of infection in Bongo District, Ghana
Building capacity for improved malaria surveillance genotyping tools