The paper provides genomic resources for malaria vector surveillance in Southeast Asia, revealing population structure and resistance regions in Anopheles dirus.

Wellcome Open Research · Jun 9, 2026Peer-reviewedGenetics

An atlas of positive selection in the genomes of major malaria vectors

Sanjay Curtis Nagi, Nicholas J. Harding, Mara Lawniczak, Martin J. Donnelly, Alistair Miles

The paper identifies and characterizes genomic regions under positive selection in malaria vectors using whole-genome sequencing data from 4,306 mosquitoes across twenty-one countries.

bioRxiv · Jul 16, 2025 · PreprintGenomics

Copy number variants underlie the major selective sweeps in insecticide resistance genes in Anopheles arabiensis from Tanzania.

Eric R. Lucas, Sanjay Curtis Nagi, Bilali I. Kabula, Bernard Batengana, William Nhandi Kisinza, Alexander Egyir-Yawson, John Essandoh, Sam Dadzie, Joseph Chabi, Arjèn E. van’t Hof, Emily J. Rippon, Dimitra Pipini, Nicholas J. Harding, Naomi A. Dyer, Chris S. Clarkson, , Martin J. Donnelly

This study identifies copy number variants (CNVs) as key drivers of insecticide resistance in Anopheles arabiensis, revealing new gene clusters and resistance mechanisms to deltamethrin and pirimiphos-methyl.

bioRxiv · Mar 11, 2024 · PreprintGenomics

Accurate simultaneous sequencing of genetic and epigenetic bases in DNA

Jens Füllgrabe, Walraj S. Gosal, Páidí Creed, Sidong Liu, Casper K. Lumby, David J. Morley, Tobias W. B. Ost, Albert J. Vilella, Shirong Yu, Helen Bignell, Philippa Burns, Tom Charlesworth, Beiyuan Fu, Howerd Fordham, Nicholas J. Harding, , Shankar Balasubramanian

This paper introduces a method to simultaneously sequence genetic and epigenetic bases in DNA with single-base resolution, demonstrating accuracy and versatility in human genomic and cell-free DNA samples.

Nature Biotechnology · Feb 6, 2023Peer-reviewedGenomics

Genome-wide association studies reveal novel loci associated with pyrethroid and organophosphate resistance in Anopheles gambiae s.l.

Eric R. Lucas, Sanjay Curtis Nagi, Alexander Egyir-Yawson, John Essandoh, Sam Dadzie, Joseph Chabi, Luc Djogbénou, Adandé A. Medjigbodo, Constant Edi, Guillaume Koffivi Ketoh, Benjamin G. Koudou, Arjèn E. van’t Hof, Emily J. Rippon, Dimitra Pipini, Nicholas J. Harding, , David Weetman

This study identifies novel genetic loci associated with resistance to pyrethroid and organophosphate insecticides in Anopheles gambiae s.l. through genome-wide association analyses.

bioRxiv · Jan 13, 2023 · PreprintGenomics

The genetic architecture of target-site resistance to pyrethroid insecticides in the African malaria vectors Anopheles gambiae and Anopheles coluzzii

Chris S. Clarkson, Alistair Miles, Nicholas J. Harding, Andrias O. O’Reilly, David Weetman, Dominic P. Kwiatkowski, Martin J. Donnelly

This study identifies novel genetic variants and haplotypes associated with pyrethroid resistance in malaria vectors, revealing complex resistance mechanisms and geographical spread.

Molecular Ecology · Feb 16, 2021Peer-reviewedGenomics

Resistance to pirimiphos-methyl in West African Anopheles is spreading via duplication and introgression of the Ace1 locus

Xavier Grau‐Bové, Eric R. Lucas, Dimitra Pipini, Emily J. Rippon, Arjèn E. van’t Hof, Constant Edi, Samuel Dadzie, Alexander Egyir-Yawson, John Essandoh, Joseph Chabi, Luc Djogbénou, Nicholas J. Harding, Alistair Miles, Dominic P. Kwiatkowski, Martin J. Donnelly, David Weetman

The paper identifies a resistance mechanism to pirimiphos-methyl in Anopheles mosquitoes through duplication and introgression of the Ace1 locus, showing its spread in West Africa.

PLoS Genetics · Jan 21, 2021Peer-reviewedGenomics

Genome variation and population structure among 1,142 mosquitoes of the African malaria vector species Anopheles gambiae and Anopheles coluzzii

The Anopheles gambiae 1000 Genomes Consortium, Chris S. Clarkson, Alistair Miles, Nicholas J. Harding, Eric R. Lucas, C.J. Battey, Jorge Edouardo Amaya-Romero, Andrew D. Kern, Michaël C. Fontaine, Martin J. Donnelly, Mara Lawniczak, Dominic P. Kwiatkowski, Diégo Ayala, Nora J. Besansky, Austin Burt, , Christa Henrichs

The paper analyzes genome variation in 1,142 Anopheles mosquitoes to study population structure and insecticide resistance.

Genome Research · Oct 1, 2020Peer-reviewedGenomics

BPG: Seamless, Automated and Interactive Visualization of Scientific Data

Christine P’ng, Jeffrey J. Green, Lauren C. Chong, Daryl M. Waggott, Stephenie D. Prokopec, Mehrdad Shamsi, Francis Nguyen, Denise Y. F. Mak, Felix Lam, Marco Albuquerque, Ying Wu, Esther H. Jung, Maud H. W. Starmans, Michelle Chan‐Seng‐Yue, Cindy Q. Yao, , Paul Christopher Boutros

BPG is an R package that generates publication-quality, customizable plots and offers an interactive web tool for figure customization and integration with computational pipelines.

BMC Bioinformatics · Jan 21, 2019Peer-reviewedBioinformatics

Natural diversity of the malaria vector Anopheles gambiae

Alistair Miles, Chris S. Clarkson, Krzysztof Kozak, Richard D. Pearson, Martin J. Donnelly, Mara Lawniczak, Dominic P. Kwiatkowski, Jim Stalker, Eleanor Drury, Daniel G. Mead, Dushyanth Jyothi, Cinzia Malangone, Rachel Giacomantonio, Nicholas J. Harding, Giordano Bottà, , Bronwyn L. MacInnis

The paper sequences genomes of 765 malaria vector mosquitoes to study genetic diversity and insecticide resistance.

Nature · Nov 28, 2017Peer-reviewedGenomics