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Type: Journal article
Title: Applications of pooled DNA samples to the assessment of population affinities: short tandem repeats
Author: Crawford, M.
Banerjee, P.
DeMarchi, D.
Zlojutro, M.
McComb, J.
Livshits, G.
Henneberg, M.
Mosher, M.
Schanfield, M.
Knowles, J.
Citation: Human Biology (Detroit): the international journal of population biology and genetics, 2005; 77(6):723-733
Publisher: Wayne State Univ Press
Issue Date: 2005
ISSN: 0018-7143
Statement of
Michael H. Crawford, P Banerjee, Dario A. Demarchi, M Zlojutro, J McComb, Gregory Livshits, Maciej Henneberg, M. J. Mosher, Moses S. Schanfield, J. A. Knowles
Abstract: Pooled DNA samples have been used in association studies of Mendelian disease genes. This method involves combining equal quantities of DNA from patients and control subjects into separate pools and comparing the pools for distributions of genetic markers. In this study identical quantities of DNA from 300 individuals representing 6 populations were pooled and amplified for 296 loci using the touchdown polymerase chain reaction (PCR) method. The purpose of this study is to test the efficacy of pooled DNA markers in the reconstruction of the genetic structure of human populations. The populations sampled included Chuvash, Buryats, Kizhi, Native Americans, South Africans, and New York City whites. To test the accuracy of the allele-frequency distributions, we genotyped the Buryats and New York samples individually for six microsatellite markers and compared their frequencies to the allele frequencies derived from the electropherogram peak heights for the pooled DNA, producing a correlation of 0.9811 with a variance of less than 0.04. Two-dimensional scaling of genetic distances among the six populations produced clusters that reflected known historical relationships. A distance matrix was created using all 296 loci, and matrices based on individual chromosomes were correlated against the total matrix. As expected, the largest chromosomes had the highest correlations with the total matrix, whereas one of the smallest chromosomes, chromosome 22, had the lowest correlation and differed most from the combined STR distance matrix.
Keywords: Humans
Genetic Markers
Case-Control Studies
Sequence Analysis, DNA
Genetics, Population
Gene Amplification
Tandem Repeat Sequences
Microsatellite Repeats
Gene Frequency
Rights: Copyright © 2005 by The Wayne State University Press. All rights reserved.
DOI: 10.1353/hub.2006.0012
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Appears in Collections:Anatomical Sciences publications
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