Human population expansion and microsatellite variation

Molecular Biology and Evolution

Volumn 17, Issue 5, 2000, Pages 757-767

  Zhivotovsky, Lev A ^a   Bennett, Lynda ^b   Bowcock, Anne M ^b   Feldman, Marcus W ^c  

^a VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

^b WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c STANFORD UNIVERSITY   (United States)

Author keywords

Bottleneck; Effective size; Expansion index; Human population growth; Microsatellites; Stepwise mutation

Indexed keywords

MICROSATELLITE DNA;

ARTICLE; GENE LOCUS; GENE MUTATION; GENETIC POLYMORPHISM; GENETIC VARIABILITY; POPULATION; POPULATION GROWTH; RACE DIFFERENCE;

EID: 0034019767     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a026354     Document Type: Article

References (43)

1. ARMOUR, J. A. L., T. ANTTINEN, C. A. MAY, E. E. VEGA, A. SAJANTILA, J. R. KIDD, K. K. KIDD, J. BERTRANPETIT, S. PAABO, and A. J. JEFFREYS. 1996. Minisatellite diversity supports a recent African origin for modern humans. Nat. Genet. 13:154-160.
2. AYALA, F., and A. A. ESCALANTE. 1996. The evolution of human populations: a molecular perspective. Mol. Phylogenet. Evol. 5:188-201.
3. BARBUJANI, G., A. MAGAGNI, E. MINCH, and L. L. CAVALLI-SFORZA. 1997. An appointment of human DNA diversity. Proc. Natl. Acad. Sci. USA 94:4516-4519.
4. BOWCOCK, A. M., A. RUIZ-LINARES, J. TOMFOHRDE, E. MINCH, J. R. KIDD, and L. L. CAVALLI-SFORZA. 1994. High resolution of human evolutionary trees with polymorphic microsatellites. Nature 368:455-457.
5. CANN, R. L., M. STONEKING, and A. WILSON. 1987. Mitochondrial DNA and human evolution. Nature 325:31-36.
6. CAVALLI-SFORZA, L. L., P. MENOZZI, and A. PIAZZA. 1996. The history and geography of human genes. Princeton University Press, Princeton, N.J.
7. CHAKRABORTY, R., M. KIMMEL, D. N. STIVERS, J. DAVIDSON, and R. DEKA. 1997. Relative mutation rates at di-, tri- and tetranucleotide microsatellite loci. Proc. Natl. Acad. Sci. USA 94:1041-1046.
8. CRAMER, H. 1946. Mathematical methods of statistics. 9th edition. Princeton University Press, Princeton, N.J.
9. DIB, C., S. FAURE, C. FIZAMES et al. (14 co-authors). 1996. A comprehensive genetic map of the human genome based on 5,264 microsatellites. Nature 380:152-154.
10. EFRON, B., and R. J. TIBSHIRANI. 1993. An introduction to the bootstrap. Chapman and Hall, N.Y.
11. FELDMAN, M. W., J. KUMM, and J. K. PRITCHARD. 1999. Mutation and migration in models of microsatellite evolution. In D. G. GOLDSTEIN and C. SCHLOTTERER, eds. Microsatellites: evolution and applications. Oxford University Press, Oxford, U.K.
12. FRAYER, D. W., M. H. WOLPOEF, A. G. THORNE, F. H. SMITH, and G. G. POPE. 1993. Theories of modern human origins: the paleontological test. Am. Anthropol. 95:14-50.
13. GOLDSTEIN, D. B., A. R. LINARES, L. L. CAVALLI-SFORZA, and M. W. FELDMAN. 1995a. An evaluation of genetic distances for use with microsatellite loci. Genetics 139:463-471.
14. _. 1995b. Genetic absolute dating based on microsatellites and the origin of modern humans. Proc. Natl. Acad. Sci. USA 92:6723-6727.
15. GOLDSTEIN, D. B., L. A. ZHIVOTOVSKY, K. NAYAR, A. R. LINARES, L. L. CAVALLI-SFORZA, and M. W. FELDMAN. 1996. Statistical properties of the variation at linked microsatellite loci: implications for the history of human Y chromosomes. Mol. Biol. Evol. 13:1213-1218.
16. HARPENDING, H. C., S. T. SHERRY, A. R. ROGERS, and M. STONEKING. 1993. The genetic structure of ancient human populations. Curr. Anthropol. 43:483-496.
17. HOELZEL, A. R., ed. 1998. Molecular genetic analysis of populations. 2nd edition. IRL Press at Oxford University Press, Oxford, England.
18. HORAI, S., K. HAYASAKA, R. KONDO, K. TSUGANE, and N. TAKAHATA. 1995. Recent African origin of modern humans revealed by complete sequences of hominoid mitochondrial DNAs. Proc. Natl. Acad. Sci. USA 92:532-536.
19. JORDE, L. B., M. BAMSHAD, W. S. WATKINS, R. ZENGER, A. E. FRALEY, P. A. KRAKOWIAK, K. D. CARPENTER, H. SOODYALL, T. JENKINS, and A. R. ROGERS. 1995. Origins and affinities of modern humans: a comparison of mitochindrial and nuclear genetic data. Am. J. Hum. Genet. 57:523-538.
20. JORDE, L. B., A. R. ROGERS, M. BAMSHAD, W. S. WATKINS, P. KRAKOWIAK, S. SUNG, J. KERE, and H. HARPENDING. 1997. Microsatellite diversity and the demographic history of modern humans. Proc. Natl. Acad. Sci. USA 94:3100-3103.
21. KIMMEL, M., R. CHAKRABORTY, J. P. KING, M. BAMSHAD, W. S. WATKINS, and L. B. JORDE. 1998. Signatures of population expansion in microsatellite repeat data. Genetics 148: 1921-1930.
22. PENNY. D., M. STEEL, P. J. WADDELL, and M. D. HENDY. 1995. Improved analysis of human mtDNA sequences supported a recent African origin for Homo sapiens. Mol. Biol. Evol. 12:863-882.
23. PRITCHARD, J. K., and M. W. FELDMAN. 1996. Statistics for microsatellite variation based on coalescence. Theor. Popul. Biol. 45:265-270.
24. PRITCHARD, J. K., M. T. SEIELSTAD, A. PEREZ-LEZAUN, and M. W. FELDMAN. 1999. Population growth of human Y chromosome: a study of y chromosome microsatellites. Mol. Biol. Evol. 16:1791-1793.
25. REICH, D. E., M. W. FELDMAN, and D. B. GOLDSTEIN. 1999. Statistical properties of two tests that use multilocus data sets to detect population expansions. Mol. Biol. Evol. 16: 453-466.
26. REICH, D. E., and D. B. GOLDSTEIN. 1998. Genetic evidence for a Paleolithic human population expansion in Africa. Proc. Natl. Acad. Sci. USA 95:8119-8123.
27. ROGERS, A. R. 1995. Genetic evidence for a Pleistocene population explosion. Evolution 49:608-615.
28. ROGERS, A. R., and H. C. HARPENDING. 1992. Population growth makes waves in the distribution of pairwise differences. Mol. Biol. Evol. 9:552-569.
29. ROGERS, A. R., and L. B. JORDE. 1995. Genetic evidence on modern human origins. Hum. Biol. 67:1-36.
30. SHERRY, S. T., A. R. ROGERS, H. C. HARPENDING, H. SOODYALL, T. JEMKINS, and M. STONEKING. 1994. Mismatch distributions of mtDNA reveal recent human population expansion. Hum. Biol. 66:761-775.
31. SOKAL, R. R., and F. J. ROHLF. 1995. Biometry. 3rd edition. Freeman, N.Y.
32. STONEKING, M. 1997. Recent African origin of human mitichondrial DNA: review of the evidence and current status of the hypothesis. Pp. 1-13 in P. DONELLY and S. TAVARE, eds. Progress in population genetics and human evolution. Springer, N.Y.
33. STONEKING, M., J. J. FONTIUS, S. L. CLIFFORD et al. (11 coauthors). 1997. Alu insertion polymorphisms and human evolution: evidence for a larger population size in Africa. Genome Res. 7:1061-1071.
34. STRINGER, C. B., and P. ANDREWS. 1988. Genetic and fossil evidence for the origin of modern humans. Science 239: 1263-1268.
35. TISHKOFF, S. A., E. DIETZSCH, W. SPEED et al. (15 co-authors). Global pattern of linkage disequilibrium at the CD4 locus and modern human origins. Science 271:1380-1387.
36. VIGILANT, L., M. STONEKING, H. HARPENDING, K. HAWRES, and A. C. WILSON. 1991. African populations and the evolution of human mitochondrial DNA. Science 253:1503-1507.
37. WARD, R. H. 1997. Phylogeography of human mtDNA: an Amerindian perspective. Pp. 33-53 in P. DONELLY and S. TAVARE, eds. Progress in population genetics and human evolution. Springer, N.Y.
38. WEBER, A. O. M., and C. WONG. 1993. Mutation of human short tandem repeats. Hum. Mol. Genet. 2:1123-1128.
39. WEIR, B. 1996. Genetic data analysis II. Sinauer, Sunderland, Mass.
40. WOLFRAM, S. 1996. Mathematica. A system for doing mathematics by computer. 3rd edition. Wolfram Media/Cambridge University Press, N.Y.
41. WOLPOFF, M. H. 1989. Multiregional evolution: the fossil alternative to Eden. Pp. 62-108 in P. MELLARS and C. STRINGER, eds. The human revolution: behavioural and biological perspectives on the origins of modern humans. Princeton University Press, Princeton, NJ.
42. ZHIVOTOVSKY, L. A., and M. W. FELDMAN. 1995. Microsatellite variability and genetic distances. Proc. Natl. Acad. Sci. USA 92:11549-11552.
43. ZHIVOTOVSKY, L. A., M. W. FELDMAN, and S. A. GRISHECHKIN. 1997. Biased mutations and microsatellite variation. Mol. Biol. Evol. 14:926-933.