Admixture into and within sub-Saharan Africa.

Busby, GB; Band, G; Si Le, Q; Jallow, M; Bougama, E; Mangano, VD; Amenga-Etego, LN; Enimil, A; Apinjoh, T; Ndila, CM; Manjurano, A; Nyirongo, V; Doumba, O; Rockett, KA; Kwiatkowski, DP; Spencer, CC; Malaria Genomic Epidemiology Network, ; , COLLABORATORS; Vanderwal, A; Elzein, A; Nyika, A; Mendy, A; Miles, A; Diss, A; Kerasidou, A; Green, A; Jeffreys, AE; MacInnis, B; Hughes, C; Moyes, C; Spencer, CC; Hubbart, C; Malangone, C; Potter, C; Mead, D; Barnwell, D; Kwiatkowski, DP; Jyothi, D; Drury, E; Somaskantharajah, E; Hilton, E; Leffler, E; Maslen, G; Band, G; Busby, G; Clarke, GM; Ragoussis, I; Garcia, JA; Rogers, J; deVries, J; Shelton, J; Ragoussis, J; Stalker, J; Rodford, J; O'Brien, J; Evans, J; Rowlands, K; Cook, K; Fitzpatrick, K; Kivinen, K; Small, K; Johnson, KJ; Rockett, KA; Hart, L; Manske, M; McCreight, M; Stevens, M; Pirinen, M; Hennsman, M; Parker, M; SanJoaquin, M; Seplúveda, N; Cook, O; Miotto, O; Deloukas, P; Craik, R; Wrigley, R; Watson, R; Pearson, R; Hutton, R; Oyola, S; Auburn, S; Shah, S; Le, SQ; Molloy, S; Bull, S; Campino, S; Clark, TG; Ruano-Rubio, V; Cornelius, V; Teo, YY; Corran, P; Silva, ND; Risley, P; Doyle, A; Evans, J; Horstmann, R; Plowe, C; Duffy, P; Carucci, D; Gottleib, M; Tall, A; Ly, AB; Dolo, A; Sakuntabhai, A; Puijalon, O; Bah, A; Camara, A; Sadiq, A; Khan, AA; Jobarteh, A; Mendy, A; Ebonyi, A; Danso, B; Taal, B; Casals-Pascual, C; Conway, DJ; Onykwelu, E; Sisay-Joof, F; Sirugo, G; Kanyi, H; Njie, H; Obu, H; Saine, H; Sambou, I; Abubakar, I; Njie, J; Fullah, J; Jaiteh, J; Bojang, KA; Jammeh, K; Sabally-Ceesay, K; Manneh, L; Camara, L; Yamoah, L; Njie, M; Njie, M; Pinder, M; Jallow, M; Aiyegbo, M; Jasseh, M; Keita, ML; Saidy-Khan, M; Jallow, M; Ceesay, N; Rasheed, O; Ceesay, PL; Esangbedo, P; Cole-Ceesay, R; Olaosebikan, R; Correa, S; Njie, S; Usen, S; Dibba, Y; Barry, A; Djimdé, A; Sall, AH; Abathina, A; Niangaly, A; Dembele, A; Poudiougou, B; Diarra, E; Bamba, K; Thera, MA; Doumbo, O; Toure, O; Konate, S; Sissoko, S; Diakite, M; Konate, AT; Modiano, D; Bougouma, EC; Bancone, G; Ouedraogo, IN; Simpore, J; Sirima, SB; Mangano, VD; Troye-Blomberg, M; Oduro, AR; Hodgson, AV; Ghansah, A; Nkrumah, F; Atuguba, F; Koram, KA; Amenga-Etego, LN; Wilson, MD; Ansah, NA; Mensah, N; Ansah, PA; Anyorigiya, T; Asoala, V; Rogers, WO; Akoto, AO; Ofori, AO; Enimil, A; Ansong, D; Sambian, D; Asafo-Agyei, E; Sylverken, J; Antwi, S; Agbenyega, T; Orimadegun, AE; Amodu, FA; Oni, O; Omotade, OO; Amodu, O; Olaniyan, S; Ndi, A; Yafi, C; Achidi, EA; Mbunwe, E; Anchang-Kimbi, J; Mugri, R; Besingi, R; Apinjoh, TO; Titanji, V; Elhassan, A; Hussein, A; Mohamed, H; Elhassan, I; Ibrahim, M; Kokwaro, G; Oluoch, T; Macharia, A; Ndila, CM; Newton, C; Opi, DH; Kamuya, D; Bauni, E; Marsh, K; Peshu, N; Molyneux, S; Uyoga, S; Williams, TN; Marsh, V; Manjurano, A; Nadjm, B; Maxwell, C; Drakeley, C; Riley, E; Mtei, F; Mtove, G; Wangai, H; Reyburn, H; Joseph, S; Ishengoma, D; Lemnge, M; Mutabingwa, T; Makani, J; Cox, S; Phiri, A; Munthali, A; Kachala, D; Njiragoma, L; Molyneux, ME; Moore, M; Ntunthama, N; Pensulo, P; Taylor, T; Nyirongo, V; Carter, R; Fernando, D; Karunaweera, N; Dewasurendra, R; Suriyaphol, P; Singhasivanon, P; Simmons, CP; Thai, CQ; Sinh, DX; Farrar, J; Chuong, LV; Phu, NH; Hieu, NT; Hoang Mai, NT; Ngoc Quyen, NT; Day, N; Dunstan, SJ; O'Riordan, SE; Hong Chau, TT; Hien, TT; Allen, A; Lin, E; Karunajeewa, H; Mueller, I; Reeder, J; Manning, L; Laman, M; Michon, P; Siba, P; Allen, S; Davis, TM; (2016) Admixture into and within sub-Saharan Africa. eLife, 5. ISSN 2050-084X DOI:

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Similarity between two individuals in the combination of genetic markers along their chromosomes indicates shared ancestry and can be used to identify historical connections between different population groups due to admixture. We use a genome-wide, haplotype-based, analysis to characterise the structure of genetic diversity and gene-flow in a collection of 48 sub-Saharan African groups. We show that coastal populations experienced an influx of Eurasian haplotypes over the last 7000 years, and that Eastern and Southern Niger-Congo speaking groups share ancestry with Central West Africans as a result of recent population expansions. In fact, most sub-Saharan populations share ancestry with groups from outside of their current geographic region as a result of gene-flow within the last 4000 years. Our in-depth analysis provides insight into haplotype sharing across different ethno-linguistic groups and the recent movement of alleles into new environments, both of which are relevant to studies of genetic epidemiology.

Item Type: Article
Faculty and Department: Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology
Faculty of Infectious and Tropical Diseases > Dept of Disease Control
Faculty of Infectious and Tropical Diseases > Dept of Immunology and Infection
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PubMed ID: 27324836
Web of Science ID: 379407800001


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