Coronavirus Host Genomics Study: South Africa (COVIGen-SA)

Figure 5

Preliminary PCA plots of COVIGen-SA data. (a) Initial genotyping results for 503 COVIGen-SA (CVG, case) participants were merged with data from 5,139 Black South African AWI-Gen (AWG, control) participants. Participants from both studies overlapped substantially, suggesting common ancestry, but some individuals map further from the centre of the cluster, reflecting the considerable genetic variation of Black South Africans and possible minor admixture components from other ancestries. (b) Case and control data were then merged with publicly available 1,000 Genomes Project data for select populations across the globe (n = 2,504). The first principal component separated continental African ethnicities from others. The second principal component then separated out non-African ethnicities. AWG: AWI-Gen (controls); BEB: Bengali in Bangladesh; CDX: Chinese Dai in Xishuangbanna, China; CHB: Han Chinese in Beijing, China; CVG: COVIGen-SA (cases); FIN: Finnish in Finland; GBR: British in England and Scotland; GIH: Gujarati Indian in Houston, TX; ITU: Indian Telugu in the UK; JPT: Japanese in Tokyo, Japan; LWK: Luhya in Webuye, Kenya; MSL, Mende in Sierra Leone; PJL: Punjabi in Lahore, Pakistan; and TSI: Toscani in Italia.

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