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Ancestry-specific recent effective population size in the Americas.

TitleAncestry-specific recent effective population size in the Americas.
Publication TypePublication
Year2018
AuthorsBrowning SR, Browning BL, Daviglus ML, Durazo-Arvizu RA, Schneiderman N, Kaplan RC, Laurie CC
JournalPLoS Genet
Volume14
Issue5
Paginatione1007385
Date Published2018 05
ISSN1553-7404
KeywordsAfrican Americans, Americas, Computer Simulation, European Continental Ancestry Group, Genetic Association Studies, Genetics, Population, Genome, Human, Haplotypes, Hispanic Americans, Humans, Population Density, United States
Abstract

Populations change in size over time due to factors such as population growth, migration, bottleneck events, natural disasters, and disease. The historical effective size of a population affects the power and resolution of genetic association studies. For admixed populations, it is not only the overall effective population size that is of interest, but also the effective sizes of the component ancestral populations. We use identity by descent and local ancestry inferred from genome-wide genetic data to estimate overall and ancestry-specific effective population size during the past hundred generations for nine admixed American populations from the Hispanic Community Health Study/Study of Latinos, and for African-American and European-American populations from two US cities. In these populations, the estimated pre-admixture effective sizes of the ancestral populations vary by sampled population, suggesting that the ancestors of different sampled populations were drawn from different sub-populations. In addition, we estimate that overall effective population sizes dropped substantially in the generations immediately after the commencement of European and African immigration, reaching a minimum around 12 generations ago, but rebounded within a small number of generations afterwards. Of the populations that we considered, the population of individuals originating from Puerto Rico has the smallest bottleneck size of one thousand, while the Pittsburgh African-American population has the largest bottleneck size of two hundred thousand.

DOI10.1371/journal.pgen.1007385
Alternate JournalPLoS Genet
PubMed ID29795556
PubMed Central IDPMC5967706
Grant ListHHSN268201300005C / HL / NHLBI NIH HHS / United States
P01 GM099568 / GM / NIGMS NIH HHS / United States
N01HC65236 / HL / NHLBI NIH HHS / United States
N01HC65235 / HL / NHLBI NIH HHS / United States
N01HC65234 / HL / NHLBI NIH HHS / United States
R01 DK101855 / DK / NIDDK NIH HHS / United States
R01 HG005701 / HG / NHGRI NIH HHS / United States
HG005701 / NH / NIH HHS / United States
GM099568 / NH / NIH HHS / United States
P30 DK063491 / DK / NIDDK NIH HHS / United States
N01HC65233 / HL / NHLBI NIH HHS / United States
N01HC65237 / HL / NHLBI NIH HHS / United States
U54 TR000123 / TR / NCATS NIH HHS / United States
MS#: 
0643
Manuscript Lead/Corresponding Author Affiliation: 
HCHS/SOL Genetic Analysis Center - University of Washington, Seattle
ECI: 
Manuscript Affiliation: 
HCHS/SOL Genetic Analysis Center - University of Washington, Seattle
Manuscript Status: 
Published