Genetic Epidemiology, Translational Neurogenomics, Psychiatric Genetics and Statistical Genetics Laboratories investigate the pattern of disease in families, particularly identical and non-identical twins, to assess the relative importance of genes and environment in a variety of important health problems.
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PMID
19012875
TITLE
Divergence between human populations estimated from linkage disequilibrium.
ABSTRACT
Observed linkage disequilibrium (LD) between genetic markers in different populations descended independently from a common ancestral population can be used to estimate their absolute time of divergence, because the correlation of LD between populations will be reduced each generation by an amount that, approximately, depends only on the recombination rate between markers. Although drift leads to divergence in allele frequencies, it has less effect on divergence in LD values. We derived the relationship between LD and time of divergence and verified it with coalescent simulations. We then used HapMap Phase II data to estimate time of divergence between human populations. Summed over large numbers of pairs of loci, we find a positive correlation of LD between African and non-African populations at levels of up to approximately 0.3 cM. We estimate that the observed correlation of LD is consistent with an effective separation time of approximately 1,000 generations or approximately 25,000 years before present. The most likely explanation for such relatively low separation times is the existence of substantial levels of migration between populations after the initial separation. Theory and results from coalescent simulations confirm that low levels of migration can lead to a downward bias in the estimate of separation time.
DATE PUBLISHED
2008 Dec
HISTORY
PUBSTATUS PUBSTATUSDATE
received 2008/06/17
revised 2008/10/07
accepted 2008/10/22
aheadofprint 2008/11/13
pubmed 2008/11/18 09:00
medline 2009/01/07 09:00
entrez 2008/11/18 09:00
AUTHORS
NAME COLLECTIVENAME LASTNAME FORENAME INITIALS AFFILIATION AFFILIATIONINFO
Sved JA Sved John A JA School of Biological Sciences, University of Sydney, Sydney, Australia.
McRae AF McRae Allan F AF
Visscher PM Visscher Peter M PM
INVESTIGATORS
JOURNAL
VOLUME: 83
ISSUE: 6
TITLE: American journal of human genetics
ISOABBREVIATION: Am. J. Hum. Genet.
YEAR: 2008
MONTH: Dec
DAY:
MEDLINEDATE:
SEASON:
CITEDMEDIUM: Internet
ISSN: 1537-6605
ISSNTYPE: Electronic
MEDLINE JOURNAL
MEDLINETA: Am J Hum Genet
COUNTRY: United States
ISSNLINKING: 0002-9297
NLMUNIQUEID: 0370475
PUBLICATION TYPE
PUBLICATIONTYPE TEXT
Journal Article
Research Support, Non-U.S. Gov't
COMMENTS AND CORRECTIONS
REFTYPE REFSOURCE REFPMID NOTE
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GRANTS
GENERAL NOTE
KEYWORDS
MESH HEADINGS
DESCRIPTORNAME QUALIFIERNAME
African Continental Ancestry Group genetics
Alleles genetics
Chromosome Mapping genetics
Computer Simulation genetics
Gene Frequency genetics
Genetic Markers genetics
Genome, Human genetics
Haplotypes genetics
Humans genetics
Linkage Disequilibrium genetics
Models, Statistical genetics
Population genetics
Recombination, Genetic genetics
Selection, Genetic genetics
SUPPLEMENTARY MESH
GENE SYMBOLS
CHEMICALS
REGISTRYNUMBER NAMEOFSUBSTANCE
0 Genetic Markers
OTHER ID's
OTHERID SOURCE
PMC2668062 NLM
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