Population structure in admixed populations: effect of admixture dynamics on the pattern of linkage disequilibrium

American Journal of Human Genetics
C L PfaffMark D Shriver


Gene flow between genetically distinct populations creates linkage disequilibrium (admixture linkage disequilibrium [ALD]) among all loci (linked and unlinked) that have different allele frequencies in the founding populations. We have explored the distribution of ALD by using computer simulation of two extreme models of admixture: the hybrid-isolation (HI) model, in which admixture occurs in a single generation, and the continuous-gene-flow (CGF) model, in which admixture occurs at a steady rate in every generation. Linkage disequilibrium patterns in African American population samples from Jackson, MS, and from coastal South Carolina resemble patterns observed in the simulated CGF populations, in two respects. First, significant association between two loci (FY and AT3) separated by 22 cM was detected in both samples. The retention of ALD over relatively large (>10 cM) chromosomal segments is characteristic of a CGF pattern of admixture but not of an HI pattern. Second, significant associations were also detected between many pairs of unlinked loci, as observed in the CGF simulation results but not in the simulated HI populations. Such a high rate of association between unlinked markers in these populations could result in fa...Continue Reading


Aug 10, 2006·Human Genetics·Xiaofeng ZhuRichard S Cooper
Jul 10, 2007·Human Genetics·Tony N FrudakisMatthew J Thomas
Apr 11, 2008·Human Genetics·Shweta ChoudhryEsteban González Burchard
Feb 3, 2005·Current Hypertension Reports·Caroline M Nievergelt, Nicholas J Schork
Jul 22, 2011·Nature Genetics·Daniel WegmannJohn Novembre
Jan 25, 2005·Nature Genetics·Xiaofeng ZhuAlan Weder
Aug 16, 2008·Neuropsychopharmacology : Official Publication of the American College of Neuropsychopharmacology·Falk W LohoffWade H Berrettini
Jul 22, 2004·Nature Reviews. Genetics·Mark D Shriver, Rick A Kittles
Jul 14, 2005·Nature Reviews. Genetics·Michael W Smith, Stephen J O'Brien
Aug 4, 2009·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Sivan Bercovici, Dan Geiger
Jul 10, 2012·American Journal of Epidemiology·Indrani HalderSteven E Reis
Jul 1, 2009·Molecular Biology and Evolution·Shuhua XuLi Jin
Oct 22, 2011·Obstetrics and Gynecology·Hui-Ju TsaiXiaobin Wang
Aug 19, 2007·Pharmacogenetics and Genomics·Tony N FrudakisHector J Gomez
May 5, 2009·Genome Research·Kenneth M Weiss, Jeffrey C Long
Oct 3, 2007·Annals of Human Genetics·J Benn-TorresRick A Kittles
May 20, 2011·Annals of Human Genetics·Joke BeutenDonna M Lehman
Jul 3, 2010·Annual Review of Genomics and Human Genetics·Cheryl A WinklerMichael W Smith
Oct 7, 2003·Annual Review of Genomics and Human Genetics·Sarah A Tishkoff, Brian C Verrelli
Oct 7, 2003·Annual Review of Genomics and Human Genetics·Rick A Kittles, Kenneth M Weiss
Oct 19, 2006·Human Heredity·Qiuying ShaShuanglin Zhang
Sep 3, 2010·BMC Bioinformatics·Bo Peng, Christopher I Amos
Dec 17, 2004·Human Genomics·Indrani Halder, Mark D Shriver
Sep 17, 2011·Genome Biology·Jacob A TennessenJoshua M Akey
Nov 29, 2012·PLoS Genetics·Andreas MassourasBart Deplancke
Mar 22, 2014·PLoS Genetics·Peter ClaesMark D Shriver
Jul 2, 2003·Pharmacogenomics·Elad Ziv, Esteban González Burchard
Apr 13, 2010·Genetics·Kirk E LohmuellerAndrew G Clark
Oct 5, 2011·Genetics·Paul Verdu, Noah A Rosenberg
Aug 4, 2004·American Journal of Pharmacogenomics : Genomics-related Research in Drug Development and Clinical Practice·John W Belmont, Richard A Gibbs


Dec 1, 1988·Proceedings of the National Academy of Sciences of the United States of America·R Chakraborty, Kenneth M Weiss
Sep 13, 1996·Science·Neil Risch, K Merikangas
Jul 31, 1998·American Journal of Human Genetics·M Laan, S Pääbo
Dec 5, 1998·American Journal of Human Genetics·Esteban J ParraMark D Shriver
Jan 16, 1999·Current Opinion in Biotechnology·J D Terwilliger, Kenneth M Weiss
Jun 12, 1999·American Journal of Human Genetics·J K Pritchard, N A Rosenberg
Mar 11, 2000·American Journal of Human Genetics·J A LautenbergerM W Smith
Apr 14, 2000·American Journal of Human Genetics·M T Hamblin, A Di Rienzo
Jan 10, 2001·American Journal of Physical Anthropology·Esteban J ParraMark D Shriver

Related Concepts

In Silico
African Continental Ancestry Group
Genetics, Population
African American
Genetic Equilibrium
Linkage Disequilibrium
False Positive Reactions

Trending Feeds


Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Synapse Loss as Therapeutic Target in MS

As we age, the number of synapses present in the human brain starts to decline, but in neurodegenerative diseases this occurs at an accelerated rate. In MS, it has been shown that there is a reduction in synaptic density, which presents a potential target for treatment. Here is the latest research on synapse loss as a therapeutic target in MS.

Artificial Intelligence in Cardiac Imaging

Artificial intelligence (ai) techniques are increasingly applied to cardiovascular (cv) medicine in cardiac imaging analysis. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

Social Learning

Social learning involves learning new behaviors through observation, imitation and modeling. Follow this feed to stay up to date on the latest research.

Cell Atlas of the Human Eye

Constructing a cell atlas of the human eye will require transcriptomic and histologic analysis over the lifespan. This understanding will aid in the study of development and disease. Find the latest research pertaining to the Cell Atlas of the Human Eye here.

Single Cell Chromatin Profiling

Techniques like ATAC-seq and CUT&Tag have the potential to allow single cell profiling of chromatin accessibility, histones, and TFs. This will provide novel insight into cellular heterogeneity and cell states. Discover the latest research on single cell chromatin profiling here.

Genetic Screens in iPSC-derived Brain Cells

Genetic screening is a critical tool that can be employed to define and understand gene function and interaction. This feed focuses on genetic screens conducted using induced pluripotent stem cell (iPSC)-derived brain cells.