Detecting Sex-Biased Gene Flow in African-americans Through the Analysis of Intra- and Inter-Population Variation at Mitochondrial DNA and Y- Chromosome Microsatellites

Battaggia, C.; Anagnostou, P.; Bosch, I.; Brisighelli, F.; Destro-Bisol, G.; Capocasa, M.

doi:10.2478/bjmg-2013-0001

Abstract

This study reports on variations at the mitochondrial DNA (mtDNA) hypervariable region 1 (HVR-1) and at seven Y-chromosome microsatellites in an African-American population sample from Chicago, IL, USA. Our results support the hypothesis that the population studied had undergone a European malebiased gene flow. We show that comparisons of intraand inter-population diversity parameters between African-Americans, Europeans and Africans may help detect sex-biased gene flow, providing a complement to quantitative methods to estimate genetic admixture.

References

1. Curtain PD. The Atlantic Slave Trade: a Census. Madison: University of Wisconsin Press, 1969.
Search in Google Scholar
2. Conniff ML, Davis TJ.; Africans in the Americas: a History of the Black Diaspora. New York: St. Martin’s Press, 1994.
Search in Google Scholar
3. Salas A, Richards M, Lareu MV, Scozzari R, Coppa A, Torroni A, et al. The African diaspora: mitochondrial DNA and the Atlantic slave trade. Am J Hum Genet. 2004; 74(3): 454-465.10.1086/382194
Search in Google Scholar
4. Salas A, Carracedo A, Richards M, Macaulay V. Charting the ancestry of African-Americans. Am J Hum Genet. 2005; 77(4): 676-680.10.1086/491675
Search in Google Scholar
5. Reed FA, Tishkoff SA. African human diversity, origins and migrations. Curr Opinion Genet Develop. 2006; 16(6): 597-605.10.1016/j.gde.2006.10.008
Search in Google Scholar
6. Reed TE. Caucasian genes in American Negroes. Science. 1969; 165(3895): 762-768.10.1126/science.165.3895.762
Search in Google Scholar
7. Parra EJ, Marcini A, Akey J, Martinson J, Batzer MA, Cooper R, et al. Estimating African-American admixture proportions by use of population-specific alleles. Am J Hum Genet. 1998; 63(6): 1839-1851.10.1086/302148
Search in Google Scholar
8. Parra EJ, Kittles RA, Argyropoulos G, Pfaff CL, Hiester K, Bonilla C, et al. Ancestral proportions and admixture dynamics in geographically defined African-Americans living in South Carolina. Am J Phys Anthropol. 2001; 114(1): 18-29.10.1002/1096-8644(200101)114:1<18::AID-AJPA1002>3.0.CO;2-2
Search in Google Scholar
9. Kayser M, Brauer S, Schädlich H, Prinz M, Batzer MA, Zimmerman PA, et al. Y Chromosome STR haplo-types and the genetic structure of US populations of African, European, and Hispanic ancestry. Genome Res. 2003; 13(4): 624-634.10.1101/gr.463003
Search in Google Scholar
10. Lind JM, Hutcheson-Dilks HB, Williams SM, Moore JH, Essex M, Ruiz-Pesini E, et al. Elevated male European and female African contributions to the genomes of African-American individuals. Hum Genet. 2007; 120 (5): 713-722.10.1007/s00439-006-0261-7
Search in Google Scholar
11. Tishkoff SA, Reed FA, Friedlaender FR, Ehret C, Ranciaro A, Froment A, et al. The genetic structure and history of Africans and African-Americans. Science. 2009; 324(5930): 1035-1044.10.1126/science.1172257
Search in Google Scholar
12. Destro-Bisol G, Maviglia R, Caglià A, Boschi I, Spedini G, Pascali V, et al. Estimating European admixture in African-Americans by using microsatellites and a micro-satellite haplotype (CD4/Alu). Hum Genet. 1999; 104(2): 149-157.10.1007/s004390050928
Search in Google Scholar
13. Kayser M, de Knijff P, Dieltjes P, Krawczak M, Nagy M, Zerjal T, et al. Applications of microsatellite- based Y-chromosome haplotyping. Electrophoresis. 1997; 18(9): 1602-1607.10.1002/elps.11501809209378129
Search in Google Scholar
14. Coia V, Boschi I, Trombetta F, Cavulli F, Montinaro F, Destro-Bisol G, et al. Evidence of high genetic variation among linguistically diverse populations on a micro-geographic scale: a case study of the Italian Alps. J Hum Genet. 2012; 57(4): 254-260.10.1038/jhg.2012.1422418692
Search in Google Scholar
15. Torres JB, Doura MB, Keita SOY, Kittles RA. Y Chromosome lineages in men of West African descent. PLoS One. 2012; 7(1): e29687.10.1371/journal.pone.0029687326624122295064
Search in Google Scholar
16. Kline MC, Vallone PM, Redman JW, Duewer DL, Calloway CD, Butler JM. Mitochondrial DNA typing screens with control region and coding region SNPs. J Forensic Sci. 2005; 50(2): 377-385.10.1520/JFS2004293
Search in Google Scholar
17. Ely B, Wilson JL, Jackson F, Jackson BA. African-American mitochondrial DNAs often match mtDNAs found in multiple African ethnic groups. BMC Biol. 2006; 4: 34.10.1186/1741-7007-4-34161886117038170
Search in Google Scholar
18. Excoffier L, Lischer HE. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour. 2010; 10(3): 564-567.10.1111/j.1755-0998.2010.02847.x21565059
Search in Google Scholar
19. Andrews RM, Kubacka I, Chinnery PF, Lightowlers RN, Turnbull DM, Howell N. Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA. Nat Genet. 1999; 23(2): 147.10.1038/1377910508508
Search in Google Scholar
20. Seielstad MT, Minch E, Cavalli-Sforza LL. Genetic evidence for a higher female migration rate in humans. Nat Genet. 1998;20(3): 278-280.10.1038/30889806547
Search in Google Scholar
21. Destro-Bisol G, Coia V, Boschi I, Verginelli F, Cagliá A, Pascali V, et al. The analysis of variation of mtDNA hypervariable region 1 suggests that Eastern and Western Pygmies diverged before the Bantu expansion. Am Nat 2004; 163(2);212-226.10.1086/38140514970923
Search in Google Scholar
22. United States Census Bureau 2000. url: http:// www.census.gov/main/www/cen2000.html.
Search in Google Scholar
23. Hsieh CL, Sutton HE. Mitochondrial and nuclear variants in a US black population: origins of a hybrid population. Ann Hum Genet. 1992;56(Pt 2): 105-112.10.1111/j.1469-1809.1992.tb01137.x1354429
Search in Google Scholar
24. Whatley W, Gillezeau R. The impact of the transatlantic slave trade on ethnic stratification in Africa. Am Econ Rev.2011; 101(3): 571-576.10.1257/aer.101.3.571
Search in Google Scholar
25. Rosa A, Brehm A. African human mtDNA phylo- geography at-a-glance. J Anthropol Sci. 2011; 89: 25-58.
Search in Google Scholar
26. Montano V, Ferri G, Marcari V, Batini C, Anyaele O, Destro-Bisol G, et al. The Bantu expansion revisited: a new analysis of Y chromosome variation in Central Western Africa. Mol Ecol. 2011; 20(13): 2693-2708.10.1111/j.1365-294X.2011.05130.x21627702
Search in Google Scholar
27. Mitchell P. Genetics and southern African prehistory: an archaeological view. J Anthropol Sci. 2010; 88: 73-92.
Search in Google Scholar
28. Francalacci P, Morelli L, Useli A, Sanna D. The history and geography of the Y chromosome SNPs in Europe: an update. J Anthropol Sci. 2010; 88: 207-214.
Search in Google Scholar
29. Cruciani F, Santolamazza P, Shen P, Macaulay V, Moral P, Olckers A, et al. A back migration from Asia to sub-Saharan Africa is supported by high-resolution analysis of human Y-chromosome haplotypes. Am J Hum Genet. 2002; 70(5): 1197-1214.10.1086/34025744759511910562
Search in Google Scholar

Detecting Sex-Biased Gene Flow in African-americans Through the Analysis of Intra- and Inter-Population Variation at Mitochondrial DNA and Y- Chromosome Microsatellites

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