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
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Publicado: Public Library of Science (PLoS) 2021
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spelling oai:doaj.org-article:12439a032a444ca3b5f4656a39b2736e2021-11-11T06:44:16ZGenetic ancestry, admixture, and population structure in rural Dominica1932-6203https://doaj.org/article/12439a032a444ca3b5f4656a39b2736e2021-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC8565749/?tool=EBIhttps://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 (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/12439a032a444ca3b5f4656a39b2736e
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