Microsatellite variation in Central Africa: An analysis of intrapopulational and interpopulational genetic diversity

American Journal of Physical Anthropology

Volumn 112, Issue 3, 2000, Pages 319-337

  Destro Bisol, Giovanni ^a   Boschi, Ilaria ^b   Caglià, Alessandra ^b   Tofanelli, Sergio ^b   Pascali, Vincenzo ^b   Paoli, Giorgio ^b   Spedini, Gabriella ^a  

^a SAPIENZA UNIVERSITY OF ROME   (Italy)

^b NONE

Author keywords

Central Africa; Genetic distances; Genetic diversity; Linkage disequilibrium; Microsatellites

Indexed keywords

ALLELISM; ARTICLE; CENTRAL AFRICA; ETHNOLOGY; GENETIC ANALYSIS; GENETIC DRIFT; GENETIC VARIABILITY; GENOTYPE; HETEROZYGOSITY; HUMAN;

AFRICA, CENTRAL; EVOLUTION; FEMALE; GENE FREQUENCY; GENOTYPE; HETEROZYGOTE; HUMANS; LINKAGE (GENETICS); MALE; MICROSATELLITE REPEATS; VARIATION (GENETICS);

EID: 0033934222     PISSN: 00029483     EISSN: None     Source Type: Journal    
DOI: 10.1002/1096-8644(200007)112:3<319::AID-AJPA4>3.0.CO;2-F     Document Type: Article

References (75)

1. Alexandre P. 1981. Lex Africains. Paris, Lidis.
2. Anker R, Steinbrueck T, Donis-Keller H. 1992. Tetranucleotide repeat polymorphism at the human thyroyd peroxidase (hTPO) locus. Hum Mol Genet 1:137.
3. Atlas national du Cameroun. 1984. Paris, Jeune Afrique.
4. Bouquiax L, Thomas JMC. 1980. Le peuplement oubangien. Hypothèse de reconstruction des mouvements dans la région oubangienne d'après des données linguistiques, ethno-linguistiques et de tradition orale. In: L. Bouquiax, editor. l'Expansion Bantoue (vol. 2). Selaf: Paris, p 807-844.
5. Bowcock AM, Kidd JR, Mountain JL, Hebert JM, Carotenuto L, Kidd KK, Cavalli Sforza LL. 1991. Drift, admixture, and selection in human evolution: a study with DNA polymorphisms. Proc Natl Acad Sci USA 88:839-843.
6. Brinkmann B, Sajantila A, Goedde HW, Matsumoto H, Nishi K, Wiegand P. 1996. Population genetic comparisons among eight populations using allele frequency and sequence data from three microsatellite loci. Eur J Hum Genet 4:175-182.
7. Budowle B, Nhari LT, Moretti TR, Kanoyangwa SB, Masuka E, Defenbaugh DA. 1997. Zimbabwe black population data on the six short tandem repeat loci-CSF1PO, TPOX, THO1, D3S1358, VWA and FGA. For Sci Int 90:215-221.
8. Calafell F, Shuster A, Speed WC, Kidd JR, Kidd KK. 1998. Short tandem repeat polymorphism evolution in humans. Eur J Hum Genet 6. 38-49.
9. Calafell F, Shuster A, Speed WC, Kidd JR, Black FL, Kidd KK. 1999. Genealogy reconstruction from short tandem repeat genotypes in an Amazonian population. Am J Phys Anthropol 108:137-146.
10. Cavalli-Sforza LL. 1986a. African Pygmies: an evaluation of the state of research. In: Cavalli-Sforza LL, editor. African Pygmies. Orlando: Academic Press, p 361-426.
11. Cavalli-Sforza LL. 1986b. Anthropometric data. In: Cavalli-Sforza LL, editor. African Pygmies. Orlando: Academic Press, p 81-93.
12. Cavalli-Sforza LL. 1986c. Demographic data. In: Cavalli-Sforza LL, editor. African Pygmies. Orlando: Academic Press, p 23-44.
13. Cavalli-Sforza L, Menozzi P, Piazza A. 1994. The history and geography of human genes. Princeton, NJ: Princeton Univerity Press.
14. Chakraborty R. 1992. Sample size requirements for addressing the population genetic issues of forensic use of DNA typing. Hum Biol 64:141-159.
15. Corvin H. 1988. Les Pygmees Mbenzele en quete de la maitrise de leur devenir: Analyse d'une mutation social a partir de l'autoévaluation d'un projet de développement. Diplòme des Haute Etudes de la Pratique Sociale, Centre de formation pour le développement, Université de Strasbourg II.
16. Da Silva WA, Bortolini MC, Meyer D, Salzano FM, Elion J, Krishnamoorthy R, Cruz Schneider MP, Castro De Guerra D, Layrisse Z, Mendez Castellano H, De Azevedo Weimer T, Zago MA. 1999. Genetic diversity of two African and sixteen South American populations determined on the basis of six hypervariable loci. Am J Phys Amthropol 109:425-437.
17. Deka R, Shriver M, Yu L, De Croo S, Hundrieser J, Bunker CH, Ferrell RE. 1995. Population genetics of dinucleotide (dC-dA)n (dG-dT)n polymorphisms in world populations. Am J Hum Genet 56:461-474.
18. Destro-Bisol G, Maviglia R, Caglià A, Boschi I, Spedini G, Pascali V, Clark AG, Tishkoff SA. 1999a. Estimating European admixture in African Americans using microsatellites and a microsatellite haplotype (CD4/Alu). Hum Genet 104:149-157.
19. Destro-Bisol G, Vienna A, Battaggia C, Paoli G, Spedini G. 1999b. Testing a biochemical model of human genetic resistance to falciparum malaria by the analysis of variation at protein and microsatellite loci. Hum Biol 71:317-334.
20. Destro-Bisol G, Pascali V, Spedini G. 2000. Application of different genetic distance methods to microsatellite data. Hum Genet 106:130-132.
21. Destro-Bisol G, Belledi M, Boschi I, Caglià A, Casalotti R, Pascali VL, Capelli C, Hall D, Dobosz M, Tyler-Smith C, Pandya A, Santos FR, Spedini G. 2000. Sex-biased gene flow and the origin of African Pygmies: a study of mitochondrial, Y-chromosomal and autosomal variation in the Mbenzele Pygmies from the Central African Republic. In preparation.
22. Dib C, Faure S, Fizames C, Samson D, Drouot N, Vignal A, Millasseau P, Marc S. 1996. A comprehensive genetic map of the human genome based on 5,624 microsatellites. Nature 380:152-154.
23. Dios S, Luis JR, Teixeira Ribeiro JC, Caeiro B. 1998. Population database of STRs in west Africa: a genetic study of TPOX, HUMVWA31/A, HUMTHO1, and CYP19. Genetica 104:77-83.
24. Edwards MC, Clemens PR, Tristan M, Pizzuti A, Gibbs RA. 1991a. Pentanucleotide repeat length polymorphism at the human CD4 locus. Nucl Acids Res 19: 4791.
25. Edwards A, Civitello A, Hammond HA, Caskey CT. 1991b. DNA typing and genetic mapping with trimeric and tetrameric tandem repeats. Am J Hum Genet 49:746-756.
26. Edwards A, Hammond HA, Jin L, Caskey CT, Chakraborty R. 1992. Genetic variation at five trimeric and tetrameric tandem repeat loci in four human population groups. Genomics 12:241-253.
27. Eller E. 1999. Population substructure and isolation by distance in three continental regions. Am J Phys Anthropol 108:147-159.
28. Evett IW, Gill PD, Scranage JK, Weir BS. 1996. Establishing the robustness of short-tandem-repeat statistics for forensic applications. Am J Hum Genet 58: 398-407.
29. Evett IW, Gill PD, Lambert JA, Oldroyd N, Frazier R, Watson S, Panchal S, Connolly A, Kimpton C. 1997. Statistical analysis of data for three British ethnic groups from a new STR multiplex. Int J Leg Med 110:5-9.
30. Felsenstein J. 1989. Phylip-phylogeny inference package (version 3.2). Cladistics 5:164-166.
31. Goldstein DB, Ruiz-Linares A, Cavalli-Sforza LL, Feldman MW. 1995. Genetic absolute dating based on microsatellites and the origin of modern human. Proc Natl Acad Sci USA 92:6723-6727.
32. Greenberg J. 1980. Classification des langues d'Afrique. In: Ki Zerbo J, ed.: Histoire générale de l'Afrique. Paris: UNESCO/Jeune Afrique, p 321-346.
33. Grimaldi MC, Crouau Roy B. 1997. Microsatellite allelic homoplasy due to variable flanking sequences. J Mol Evol 44:336-340.
34. Guo SW, Thompson EA. 1992. Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics 48:361-372.
35. Harpending H, Relethford J, Sherry ST. 1996. Methods and models for understanding human diversity. In: Boyce AJ, Mascie-Taylor CGN, editors. Molecular biology and human diversity. Cambridge: Cambridge University Press, p 293-299.
36. He L, Morris S, Lennon A, St Clair DM, Porteous DJ, Wright AF, Muir WJ, Blackwood DH. 1996. A genome-wide search for linkage in a large bipolar family: comparison of genotyping accuracy using di- and tetranucleotide repeat microsatellite markers. Psychiatr Genet 6:123-129.
37. Hochberg Y. 1988. A sharper Bonferroni procedure for multiple tests of significance. Biometrika 75:800-802.
38. Jayakar SD, Cavalli-Sforza LL. 1986. Gene frequency variation, population genetic structure and natural selection. In: Cavalli-Sforza LL, editor. African Pygmies. Orlando: Academic Press, p 319-338.
39. Jorde LB, Rogers AR, Bamshad M, Watkins WS, Krakowiak P, Sung S, Kere J, Harpending HC. 1997. Microsatellite diversity and the demographic history of modern humans. Proc Natl Acad Sci USA 94:3100-3103.
40. Kimpton C, Walton A, Gill P. 1992. A further tetranucleotide repeat polymorphism in the vWF gene. Hum Mol Genet 1:287.
41. Legendre P, Anderson MJ. 1998. Distance-based redundancy analysis: testing multi-species responses in multi-factorial ecological experiments. Ecological Monographs 69:1-24.
42. Li H, Schmidt L, Wei MH, Hustad T, Lerman MI, Zbar B, Tory K. 1993. Three tetranucleotide polymorphisms for loci: D3S1352 D3S1358 D3S1359. Hum Mol Genet 2:1327.
43. Lin Z, Cui X, Li H. 1996. Multiplex genotype determination at a large number of gene loci. Proc Natl Acad Sci USA 93:2582-2587.
44. Meyer E, Wiegand P, Brinkmann B. 1995. Phenotype differences of STRs in 7 Human populations. Int J Leg Med 107:314-322.
45. Minch E, Ruiz-Linares A, Goldstein D, Feldman M, Cavalli-Sforza LL. 1997. Microsat (version 1.5d): a computer program for calculating various statistics on microsatellite allele data. Human Population Genetics Laboratory, Stanford University, Stanford, California.
46. Moscetti A, Boschi I, Dobosz M, Destro-Bisol G, Pescarmona M, d'Aloja E, Pascali VL. 1995. Fluorescence based classification of microsatellites using wavelength semiautomatic sequencer: genotype assignment and identity test by analysis of comigrating peak profiles. Electrophoresis 16:1875-1880.
47. Murdock GP. 1959. Africa: its people and their culture history. New York: McGraw-Hill.
48. Mveng G. 1984. Histoire du Cameroun. Yaounde, CEPER.
49. Nauta MJ, Weissing FJ. 1996. Constraints on allele size at microsatellite loci: implications for genetic differentiation. Genetics 143:1021-1032.
50. Nei M. 1987. Molecular evolutionary genetics. New York: Columbia University Press.
51. Perez-Lezaun A, Calafell F, Mateu E, Comas D, Bosch E, Bertranpetit J. 1997a. Allele frequencies for 20 microsatellites in a worldwide population survey. Hum Hered 47:189-196.
52. Perez Lezaun A, Calafell F, Mateu E, Comas D, Ruiz Pacheco R, Bertranpetit J. 1997b. 1997. Microsatellite variation and the differentiation of modern humans. Hum Genet 99:1-7.
53. Polymeropoulos MH, Rath DS, Xiao H, Merril CR. 1991a. Tetrancleotide repeat polymorphism at the human coagulation factor XIII subunit gene (F13A1). Nucl Acids Res 19:4306.
54. Polymeropoulos MH, Rath DS, Xiao H, Merril C. 1991b. Tetranucleotide repeat polymorphism at the human c-fes/fps proto-oncogene (FES). Nucl Acids Res 19: 4018.
55. Prata MJ, Amorim A, Gusmao L, Trovoada J. 1996. Population Genetics of the STRs TPO, THO1 and VWA31/A in Sao Tomé e Principe, In: Carracedo A, Brinkman B, Bar W, editors. Advances in Forensic Haemogenetics Vol. 6. Berlin: Springer, p. 604-606.
56. Raymond M, Rousset F. 1995. GENEPOP (version 2.0): a population genetics software for exact tests and ecumenicism. Montpellier, France.
57. Relethford JH, Jorde LB. 1999. Genetic evidence for larger African population size during recent human evolution. Am J Phys Anthropol 108:251-260.
58. Reynolds J, Weir BS, Cockerham CC. 1983. Estimation of the coancestry coefficient: basis for a short term genetic distance. Genetics 105:767-779.
59. Robertson A, Hill WG. 1984. Deviations from Hardy-Weinberg proportions: sampling variances and use in estimation of inbreeding coefficients. Genetics 107: 703-18.
60. Rogers AR, Jorde LB. 1996. Ascertainment bias in estimates of average heterozygosity. Am J Hum Genet 58:1033-1041.
61. Rousset F, Raymond M. 1995. Testing heterozygote excess and deficiency. Genetics 140:1413-1419.
62. Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425.
63. Schneider S, Kueffer JM, Roessli D, Excoffier L. 1997. Arlequin ver1.1: a software for population genetic data analysis. Genetics and Biometry Laboratory, University of Geneva, Geneva.
64. Scozzari R, Cruciani F, Santolamazza P, Sellitto D, Modiano D, Cai W. 1995. Allelic association between the HUMF13A01 (AAAG)n STR locus and a nearby two-base insertion/deletion polymorphic marker. Am J Hum Genet 56:1005-1006.
65. Sharma V, Litt M. 1992. Tetranucleotide repeat polymorphism at the D21S11 locus. Hum Mol Genet 1:67.
66. Shriver MD, Jin L, Boerwinkle E, Deka R, Ferrell RE, Chakraborty R. 1995. A novel measure of genetic distance for highly polymorphic tandem repeat loci. Mol Biol Evol 12:914-920.
67. Slatkin M. 1995a. Hitchiking and associative overdominance at a microsatellite locus. Mol Biol Evol 12:473-480.
68. Slatkin M. 1995b. A measure of population subdivision based on microsatellite allele frequencies. Genetics 139:457-462.
69. Spedini G, Bailly C. 1989. Etude anthropobiologique au Cameroun. Les Bamilèké du plateau occidental. Riv Antropol 65:193-212.
70. Spedini G, Destro-Bisol G, Mondovì S, Kaptué L, Taglioli L, Paoli G. 1999. The peopling of sub-Saharan Africa: the case study of Cameroon. Am J Phys Antropol 110:143-162.
71. Straub RE, Speer MC, Luo Y, Rojas K, Overhauser J, Ott J, Gilliam C. 1993. A microsatellite genetic linkage map of human chromosome 18. Genomics 15:48-56.
72. Tishkoff SA, Dietzsch E, Speed W, Pakstis AJ, Kidd JR, Cheung K, Bonné-Tamir B, Santachiara-Benerecetti AS, Moral P, Krings M, Paabo S, Watson E, Risch N, Jenkins T, Kidd KK. 1996. Global Patterns of Linkage Disequilibrium at the CD4 Locus and modern human origins. Science 271:1380-1387
73. Tishkoff SA, Goldman A, Calafell F, Speed WC, Deinard AS, Bonne-Tamir B, Kidd JR, Pakstis AJ, Jenkins T, Kidd KK. 1998. A global haplotype analysis of the myotonic dystrophy locus: implications for the evolution of modern humans and for the origin of myotonic dystrophy mutations. Am J Hum Genet 62:1389-402.
74. Weber JL, Wong C. 1993. Mutation of human short tandem repeats. Hum Mol Genet 2:1123-1128.
75. Zhivotovsky LA, Feldman MW, Grishechkin SA. 1997. Biased mutations and microsatellite variation. Mol Biol Evol 14:926-933.