Publications – Center for Communicable Disease Dynamics

Genomic framework for malaria parasites: challenging but necessary.

Author(s): Camponovo F, Buckee CO, Taylor ARJournal: Trends ParasitolPMID: 36804382 February 2023

Resolving drug selection and migration in an inbred South American Plasmodium falciparum population with identity-by-descent analysis.

Author(s): Carrasquilla M, Early AM, Taylor AR, Knudson Ospina A, Echeverry DF, Anderson TJC, Mancilla E, Aponte S, Cárdenas P, Buckee CO, Rayner JC, Sáenz FE, Neafsey DE, Corredor VJournal: PLoS PathogPMID: 36542676 December 2022

The human malaria parasite Plasmodium falciparum is globally widespread, but its prevalence varies significantly between and even within countries. Most…

Measurably recombining malaria parasites.

Author(s): Camponovo F, Buckee CO, Taylor ARJournal: Trends ParasitolPMID: 36435688 November 2022

Genomic epidemiology has guided research and policy for various viral pathogens and there has been a parallel effort towards using…

Design and implementation of multiplexed amplicon sequencing panels to serve genomic epidemiology of infectious disease: a malaria case study.

Author(s): LaVerriere E, Schwabl P, Carrasquilla M, Taylor AR, Johnson ZM, Shieh M, Panchal R, Straub TJ, Kuzma R, Watson S, Buckee CO, Andrade CM, Portugal S, Crompton PD, Traore B, Rayner JC, Corredor V, James K, Cox H, Early AM, MacInnis BL, Neafsey DEJournal: Mol Ecol ResourPMID: 35437908 April 2022

Multiplexed PCR amplicon sequencing (AmpSeq) is an increasingly popular application for cost-effective monitoring of threatened species and managed wildlife populations,…

Resolving drug selection and migration in an inbred South American Plasmodium falciparum population with identity-by-descent analysis

Author(s): Carrasquilla M, Early AM, Taylor AR, Knudson A, Echeverry DF, Anderson TJ, Mancilla E, Aponte S, Cárdenas P, Buckee CO, Rayner JC, Sáenz FE, Neafsey DE, Corredor VJournal: bioRxiv February 2022

The human malaria parasite Plasmodium falciparum is globally widespread, but its prevalence varies significantly between and even within countries. Most…

Evaluating the reliability of mobility metrics from aggregated mobile phone data as proxies for SARS-CoV-2 transmission in the USA: a population-based study.

Author(s): Kishore N, Taylor AR, Jacob PE, Vembar N, Cohen T, Buckee CO, Menzies NAJournal: Lancet Digit HealthPMID: 34740555 November 2021

In early 2020, the response to the SARS-CoV-2 pandemic focused on non-pharmaceutical interventions, some of which aimed to reduce transmission…

The relationship between human mobility measures and SAR-Cov-2 transmission varies by epidemic phase and urbanicity: results from the United States

Author(s): Kishore N, Taylor AR, Jacob PE, Vembar N, Cohen T, Menzies NA, Buckee CJournal: medRxiv April 2021

Global efforts to prevent the spread of the SARS-COV-2 pandemic in early 2020 focused on non-pharmaceutical interventions like social distancing;…

Distinguishing gene flow between malaria parasite populations

Author(s): Brown TS, Taylor AR, Arogbokun O, Buckee CO, Chang HHJournal: bioRxiv January 2021

Measuring gene flow between malaria parasite populations in different geographic locations can provide strategic information for malaria control interventions. Multiple…

Identity-by-descent with uncertainty characterises connectivity of Plasmodium falciparum populations on the Colombian-Pacific coast.

Author(s): Taylor AR, Echeverry DF, Anderson TJC, Neafsey DE, Buckee COJournal: PLoS GenetPMID: 33196661 November 2020

Characterising connectivity between geographically separated biological populations is a common goal in many fields. Recent approaches to understanding connectivity between…

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

Author(s): Watson JA, Taylor AR, Ashley EA, Dondorp A, Buckee CO, White NJ, Holmes CCJournal: PLoS GenetPMID: 33035220 October 2020

Genetic surveillance of malaria parasites supports malaria control programmes, treatment guidelines and elimination strategies. Surveillance studies often pose questions about…