Genetic substructure and complex demographic history of South African Bantu speakers
South Eastern Bantu-speaking (SEB) groups constitute more than 80% of the population in South Africa. Despite clear linguistic and geographic diversity, the genetic differences between these groups have not been systematically investigated. Based on genome-wide data of over 5000 individuals, represe...
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creator | Sengupta, Dhriti Choudhury, Ananyo Fortes-Lima, Cesar Aron, Shaun Whitelaw, Gavin Bostoen, Koen Gunnink, Hilde Chousou-Polydouri, Natalia Delius, Peter Tollman, Stephen Gómez-Olivé, F. Xavier Norris, Shane Mashinya, Felistas Alberts, Marianne Hazelhurst, Scott Schlebusch, Carina M Ramsay, Michèle H3Africa Consortium, [missing] |
description | South Eastern Bantu-speaking (SEB) groups constitute more than 80% of the population in South Africa. Despite clear linguistic and geographic diversity, the genetic differences between these groups have not been systematically investigated. Based on genome-wide data of over 5000 individuals, representing eight major SEB groups, we provide strong evidence for fine-scale population structure that broadly aligns with geographic distribution and is also congruent with linguistic phylogeny (separation of Nguni, Sotho-Tswana and Tsonga speakers). Although differential Khoe-San admixture plays a key role, the structure persists after Khoe-San ancestry-masking. The timing of admixture, levels of sex-biased gene flow and population size dynamics also highlight differences in the demographic histories of individual groups. The comparisons with five Iron Age farmer genomes further support genetic continuity over similar to 400 years in certain regions of the country. Simulated trait genome-wide association studies further show that the observed population structure could have major implications for biomedical genomics research in South Africa. Despite linguistic and geographic diversity in South Eastern Bantu-speaking (SEB) groups of South Africa, genetic variation in these groups has not been investigated in depth. Here, the authors analyse genome-wide data from 5056 individuals, providing insights into demographic history across SEB groups. |
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Xavier ; Norris, Shane ; Mashinya, Felistas ; Alberts, Marianne ; Hazelhurst, Scott ; Schlebusch, Carina M ; Ramsay, Michèle ; H3Africa Consortium, [missing]</creator><creatorcontrib>Sengupta, Dhriti ; Choudhury, Ananyo ; Fortes-Lima, Cesar ; Aron, Shaun ; Whitelaw, Gavin ; Bostoen, Koen ; Gunnink, Hilde ; Chousou-Polydouri, Natalia ; Delius, Peter ; Tollman, Stephen ; Gómez-Olivé, F. Xavier ; Norris, Shane ; Mashinya, Felistas ; Alberts, Marianne ; Hazelhurst, Scott ; Schlebusch, Carina M ; Ramsay, Michèle ; H3Africa Consortium, [missing]</creatorcontrib><description>South Eastern Bantu-speaking (SEB) groups constitute more than 80% of the population in South Africa. Despite clear linguistic and geographic diversity, the genetic differences between these groups have not been systematically investigated. Based on genome-wide data of over 5000 individuals, representing eight major SEB groups, we provide strong evidence for fine-scale population structure that broadly aligns with geographic distribution and is also congruent with linguistic phylogeny (separation of Nguni, Sotho-Tswana and Tsonga speakers). Although differential Khoe-San admixture plays a key role, the structure persists after Khoe-San ancestry-masking. The timing of admixture, levels of sex-biased gene flow and population size dynamics also highlight differences in the demographic histories of individual groups. The comparisons with five Iron Age farmer genomes further support genetic continuity over similar to 400 years in certain regions of the country. Simulated trait genome-wide association studies further show that the observed population structure could have major implications for biomedical genomics research in South Africa. Despite linguistic and geographic diversity in South Eastern Bantu-speaking (SEB) groups of South Africa, genetic variation in these groups has not been investigated in depth. 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Xavier</creatorcontrib><creatorcontrib>Norris, Shane</creatorcontrib><creatorcontrib>Mashinya, Felistas</creatorcontrib><creatorcontrib>Alberts, Marianne</creatorcontrib><creatorcontrib>Hazelhurst, Scott</creatorcontrib><creatorcontrib>Schlebusch, Carina M</creatorcontrib><creatorcontrib>Ramsay, Michèle</creatorcontrib><creatorcontrib>H3Africa Consortium, [missing]</creatorcontrib><title>Genetic substructure and complex demographic history of South African Bantu speakers</title><description>South Eastern Bantu-speaking (SEB) groups constitute more than 80% of the population in South Africa. Despite clear linguistic and geographic diversity, the genetic differences between these groups have not been systematically investigated. Based on genome-wide data of over 5000 individuals, representing eight major SEB groups, we provide strong evidence for fine-scale population structure that broadly aligns with geographic distribution and is also congruent with linguistic phylogeny (separation of Nguni, Sotho-Tswana and Tsonga speakers). Although differential Khoe-San admixture plays a key role, the structure persists after Khoe-San ancestry-masking. The timing of admixture, levels of sex-biased gene flow and population size dynamics also highlight differences in the demographic histories of individual groups. The comparisons with five Iron Age farmer genomes further support genetic continuity over similar to 400 years in certain regions of the country. Simulated trait genome-wide association studies further show that the observed population structure could have major implications for biomedical genomics research in South Africa. Despite linguistic and geographic diversity in South Eastern Bantu-speaking (SEB) groups of South Africa, genetic variation in these groups has not been investigated in depth. Here, the authors analyse genome-wide data from 5056 individuals, providing insights into demographic history across SEB groups.</description><subject>General Biochemistry</subject><subject>General Chemistry</subject><subject>General Physics and Astronomy</subject><subject>Genetics and Molecular Biology</subject><subject>Science General</subject><issn>2041-1723</issn><issn>2041-1723</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><sourceid>ADGLB</sourceid><recordid>eNqdi8sKwjAURIMoKOo_3B8otE1AXar42Os-3MbbJtomJQ_Rv1fBhWtnMwfmzIBNylwUWbEo-fCHx2wewjV_h6-KpRATdj6QpWgUhFSF6JOKyROgvYByXd_SAy7UucZjr9-SNiE6_wRXw8mlqGFde6PQwgZtTBB6whv5MGOjGttA829PWbnfnbfHrNFko2xN5UlhlA6NRK-0uZNMzWeqSC4XOedC8L9OL2_xT58</recordid><startdate>2021</startdate><enddate>2021</enddate><creator>Sengupta, Dhriti</creator><creator>Choudhury, Ananyo</creator><creator>Fortes-Lima, Cesar</creator><creator>Aron, Shaun</creator><creator>Whitelaw, Gavin</creator><creator>Bostoen, Koen</creator><creator>Gunnink, Hilde</creator><creator>Chousou-Polydouri, Natalia</creator><creator>Delius, Peter</creator><creator>Tollman, Stephen</creator><creator>Gómez-Olivé, F. 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Based on genome-wide data of over 5000 individuals, representing eight major SEB groups, we provide strong evidence for fine-scale population structure that broadly aligns with geographic distribution and is also congruent with linguistic phylogeny (separation of Nguni, Sotho-Tswana and Tsonga speakers). Although differential Khoe-San admixture plays a key role, the structure persists after Khoe-San ancestry-masking. The timing of admixture, levels of sex-biased gene flow and population size dynamics also highlight differences in the demographic histories of individual groups. The comparisons with five Iron Age farmer genomes further support genetic continuity over similar to 400 years in certain regions of the country. Simulated trait genome-wide association studies further show that the observed population structure could have major implications for biomedical genomics research in South Africa. Despite linguistic and geographic diversity in South Eastern Bantu-speaking (SEB) groups of South Africa, genetic variation in these groups has not been investigated in depth. Here, the authors analyse genome-wide data from 5056 individuals, providing insights into demographic history across SEB groups.</abstract><oa>free_for_read</oa></addata></record> |
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subjects | General Biochemistry General Chemistry General Physics and Astronomy Genetics and Molecular Biology Science General |
title | Genetic substructure and complex demographic history of South African Bantu speakers |
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