Caroline O. Buckee

Temporal and spatial dynamics of Plasmodium falciparum clonal lineages in Guyana

The paper analyzes clonal dynamics of Plasmodium falciparum in Guyana using whole genome sequencing, finding that stochastic factors drive clonality rather than deterministic selection for drug resistance mutations.

Distinguishing gene flow between malaria parasite populations

This paper evaluates the ability to distinguish gene flow levels between malaria parasite populations using real and simulated data, comparing estimators and determining marker and sample thresholds.

A cautionary note on the use of unsupervised machine learning algorithms to characterise malaria parasite population structure from genetic distance matrices

This paper warns against using unsupervised machine learning algorithms like PCoA and HAC to infer malaria parasite ancestry from genetic distance matrices, highlighting their limitations and providing guidance for more rigorous analysis.

Accounting for red blood cell accessibility reveals distinct invasion strategies in Plasmodium falciparum strains

The paper shows that Plasmodium falciparum strains use different invasion strategies based on red blood cell age and accessibility, revealing specialist and generalist behaviors affecting parasitemia.

Identity-by-descent relatedness estimates with uncertainty characterise departure from isolation-by-distance between Plasmodium falciparum populations on the Colombian-Pacific coast

The paper estimates IBD-relatedness with uncertainty between Plasmodium falciparum populations and finds connectivity between Buenaventura and Tumaco is higher than expected under isolation-by-distance.

Estimating relatedness between malaria parasites

This paper compares relatedness measures in malaria parasites using identity-by-state and identity-by-descent, recommending identity-by-descent for portability and providing marker requirements for reliable estimates.