Genetic ancestry, admixture, and population structure in rural Dominica.

The Caribbean is a genetically diverse region with heterogeneous admixture compositions influenced by local island ecologies, migrations, colonial conflicts, and demographic histories. The Commonwealth of Dominica is a mountainous island in the Lesser Antilles historically known to harbor communitie...

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Autores principales:	Monica H Keith, Mark V Flinn, Harly J Durbin, Troy N Rowan, Gregory E Blomquist, Kristen H Taylor, Jeremy F Taylor, Jared E Decker
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a244422f52524e4d9f261021613e38eb
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spelling	oai:doaj.org-article:a244422f52524e4d9f261021613e38eb2021-12-02T20:04:28ZGenetic ancestry, admixture, and population structure in rural Dominica.1932-620310.1371/journal.pone.0258735https://doaj.org/article/a244422f52524e4d9f261021613e38eb2021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0258735https://doaj.org/toc/1932-6203The Caribbean is a genetically diverse region with heterogeneous admixture compositions influenced by local island ecologies, migrations, colonial conflicts, and demographic histories. The Commonwealth of Dominica is a mountainous island in the Lesser Antilles historically known to harbor communities with unique patterns of migration, mixture, and isolation. This community-based population genetic study adds biological evidence to inform post-colonial narrative histories in a Dominican horticultural village. High density single nucleotide polymorphism data paired with a previously compiled genealogy provide the first genome-wide insights on genetic ancestry and population structure in Dominica. We assessed family-based clustering, inferred global ancestry, and dated recent admixture by implementing the fastSTRUCTURE clustering algorithm, modeling graph-based migration with TreeMix, assessing patterns of linkage disequilibrium decay with ALDER, and visualizing data from Dominica with Human Genome Diversity Panel references. These analyses distinguish family-based genetic structure from variation in African, European, and indigenous Amerindian admixture proportions, and analyses of linkage disequilibrium decay estimate admixture dates 5-6 generations (~160 years) ago. African ancestry accounts for the largest mixture components, followed by European and then indigenous components; however, our global ancestry inferences are consistent with previous mitochondrial, Y chromosome, and ancestry marker data from Dominica that show uniquely higher proportions of indigenous ancestry and lower proportions of African ancestry relative to known admixture in other French- and English-speaking Caribbean islands. Our genetic results support local narratives about the community's history and founding, which indicate that newly emancipated people settled in the steep, dense vegetation along Dominica's eastern coast in the mid-19th century. Strong genetic signals of post-colonial admixture and family-based structure highlight the localized impacts of colonial forces and island ecologies in this region, and more data from other groups are needed to more broadly inform on Dominica's complex history and present diversity.Monica H KeithMark V FlinnHarly J DurbinTroy N RowanGregory E BlomquistKristen H TaylorJeremy F TaylorJared E DeckerPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 11, p e0258735 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Monica H Keith Mark V Flinn Harly J Durbin Troy N Rowan Gregory E Blomquist Kristen H Taylor Jeremy F Taylor Jared E Decker Genetic ancestry, admixture, and population structure in rural Dominica.
description	The Caribbean is a genetically diverse region with heterogeneous admixture compositions influenced by local island ecologies, migrations, colonial conflicts, and demographic histories. The Commonwealth of Dominica is a mountainous island in the Lesser Antilles historically known to harbor communities with unique patterns of migration, mixture, and isolation. This community-based population genetic study adds biological evidence to inform post-colonial narrative histories in a Dominican horticultural village. High density single nucleotide polymorphism data paired with a previously compiled genealogy provide the first genome-wide insights on genetic ancestry and population structure in Dominica. We assessed family-based clustering, inferred global ancestry, and dated recent admixture by implementing the fastSTRUCTURE clustering algorithm, modeling graph-based migration with TreeMix, assessing patterns of linkage disequilibrium decay with ALDER, and visualizing data from Dominica with Human Genome Diversity Panel references. These analyses distinguish family-based genetic structure from variation in African, European, and indigenous Amerindian admixture proportions, and analyses of linkage disequilibrium decay estimate admixture dates 5-6 generations (~160 years) ago. African ancestry accounts for the largest mixture components, followed by European and then indigenous components; however, our global ancestry inferences are consistent with previous mitochondrial, Y chromosome, and ancestry marker data from Dominica that show uniquely higher proportions of indigenous ancestry and lower proportions of African ancestry relative to known admixture in other French- and English-speaking Caribbean islands. Our genetic results support local narratives about the community's history and founding, which indicate that newly emancipated people settled in the steep, dense vegetation along Dominica's eastern coast in the mid-19th century. Strong genetic signals of post-colonial admixture and family-based structure highlight the localized impacts of colonial forces and island ecologies in this region, and more data from other groups are needed to more broadly inform on Dominica's complex history and present diversity.
format	article
author	Monica H Keith Mark V Flinn Harly J Durbin Troy N Rowan Gregory E Blomquist Kristen H Taylor Jeremy F Taylor Jared E Decker
author_facet	Monica H Keith Mark V Flinn Harly J Durbin Troy N Rowan Gregory E Blomquist Kristen H Taylor Jeremy F Taylor Jared E Decker
author_sort	Monica H Keith
title	Genetic ancestry, admixture, and population structure in rural Dominica.
title_short	Genetic ancestry, admixture, and population structure in rural Dominica.
title_full	Genetic ancestry, admixture, and population structure in rural Dominica.
title_fullStr	Genetic ancestry, admixture, and population structure in rural Dominica.
title_full_unstemmed	Genetic ancestry, admixture, and population structure in rural Dominica.
title_sort	genetic ancestry, admixture, and population structure in rural dominica.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/a244422f52524e4d9f261021613e38eb
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Genetic ancestry, admixture, and population structure in rural Dominica.

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