Data accessibility
All genomic data sets are available from the European Nucleotide Archive. Pooled template whole-genome sequencing data are available under study accessions PRJEB13485 (Malawi 2002 and Malawi 2014), PRJEB24384 (Ghana, Benin, Cameroon and Uganda) and PRJEB35040 (Mozambique 2002, 2016; DRC-Kinshasa and Mikalayi). The sequences have been submitted to GenBank accession number: OR000399