Going the distance: human population genetics in a clinal world

Trends in Genetics

Volumn 23, Issue 9, 2007, Pages 432-439

  Handley, Lori J Lawson ^a,c   Manica, Andrea ^a   Goudet, Jérôme ^a,b   Balloux, François ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^b UNIVERSITY OF LAUSANNE   (Switzerland)

^c UNIVERSITY OF HULL   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CHEMOKINE RECEPTOR CCR5;

CLINICAL RESEARCH; GENE MUTATION; GENETIC DISTANCE; GENETIC VARIABILITY; HUMAN; MAJOR HISTOCOMPATIBILITY COMPLEX; NONHUMAN; POPULATION GENETICS; PRIORITY JOURNAL; REVIEW; SINGLE NUCLEOTIDE POLYMORPHISM;

EMIGRATION AND IMMIGRATION; GENETICS, POPULATION; GEOGRAPHY; HUMANS; MODELS, BIOLOGICAL; MODELS, GENETIC; SELECTION (GENETICS); VARIATION (GENETICS);

EID: 34547860403     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2007.07.002     Document Type: Review

References (71)

1. Wright S. An analysis of local variability of flower colour in Linanthus parryae. Genetics 28 (1943) 139-156
2. Dobzhansky T., and Epling C. Contributions to the genetics, taxonomy and ecology of Drosophila pseudoobscura and its relatives. Carnegie Inst. Washington Publ. 554 (1944) 1-183
3. Mourant A.E., et al. The Distribution of Human Blood Groups and Other Polymorphisms (1976), Oxford University Press
4. Lewontin R.C. The apportionment of human diversity. Evol. Biol. 6 (1972) 381-398
5. Cavalli-Sforza L., et al. The History and Geography of Human Genes (1994), Princeton University Press
6. Cavalli-Sforza L.L., and Feldman M.W. The application of molecular genetic approaches to the study of human evolution. Nat. Genet. 33 (2003) 266-275
7. Wright S. Isolation by distance. Genetics 28 (1943) 114-138
8. Rosenberg N.A., et al. Genetic structure of human populations. Science 298 (2002) 2381-2385
9. Cann H.M., et al. A human genome diversity cell line panel. Science 296 (2002) 261-262
10. Ramachandran S., et al. Support from the relationship of genetic and geographic distance in human populations for a serial founder effect originating in Africa. Proc. Natl. Acad. Sci. U. S. A. 102 (2005) 15942-15947
11. Manica A., et al. Geography is a better determinant of human genetic differentiation than ethnicity. Hum. Genet. 118 (2005) 366-371
12. Prugnolle F., et al. Geography predicts neutral genetic diversity of human populations. Curr. Biol. 15 (2005) R159-R160
13. Linz B., et al. An African origin for the intimate association between humans and Helicobacter pylori. Nature 445 (2007) 915-918
14. Wilson J.F., et al. Population genetic structure of variable drug response. Nat. Genet. 29 (2001) 265-269
15. Jorde L.B., and Wooding S.P. Genetic variation, classification and 'race'. Nat. Genet. 36 (2004) S28-S33
16. Campbell C.D., et al. Demonstrating stratification in a European American population. Nat. Genet. 37 (2005) 868-872
17. Relethford J.H. Global patterns of isolation by distance based on genetic and morphological data. Hum. Biol. 76 (2004) 499-513
18. Bortolini M.C., et al. Y-chromosome evidence for differing ancient demographic histories in the Americas. Am. J. Hum. Genet. 73 (2003) 524-539
19. McDougall I., et al. Stratigraphic placement and age of modern humans from Kibish, Ethiopia. Nature 433 (2005) 733-736
20. Mellars P. Going East: New Genetic and Archaeological Perspectives on the Modern Human Colonization of Eurasia. Science 313 (2006) 796-800
21. Manica A., et al. The effect of ancient population bottlenecks on human phenotypic variation. Nature 448 (2007) 346-348
22. Conrad D.F., et al. A worldwide survey of haplotype variation and linkage disequilibrium in the human genome. Nat. Genet. 38 (2006) 1251-1260
23. Hey J. On the number of New World founders: a population genetic portrait of the peopling of the Americas. PLoS Biol. 3 (2005) 965-975
24. Liu H., et al. A geographically explicit genetic model of worldwide human-settlement history. Am. J. Hum. Genet. 79 (2006) 230-237
25. Currat M., and Excoffier L. Modern humans did not admix with Neanderthals during their range expansion into Europe. PLoS Biol. 2 (2004) 2264-2274
26. Ray N., et al. Recovering the geographic origin of early modern humans by realistic and spatially explicit simulations. Genome Res. 15 (2005) 1161-1167
27. Currat M., et al. SPLATCHE: a program to simulate genetic diversity taking into account environmental heterogeneity. Mol. Ecol. Notes 4 (2004) 139-142
28. Kimura M., and Weiss G.H. The stepping-stone model of population structure and the decrease of genetic correlation with distance. Genetics 49 (1964) 561-576
29. Cann R.L., et al. Mitochondrial-DNA and human-evolution. Nature 325 (1987) 31-36
30. Wolpoff M.H. Multiregional evolution: The fossil alternative to Eden. In: Mellars P., and Stringer C.B. (Eds). The Human Revolution: Biological Perspectives in the Origins of Modern Humans (1989), Princeton University Press 62-108
31. Stringer C. Modern human origins: progress and prospects. Philos. Trans. Roy. Soc. Lond. B Biol. Sci. 357 (2002) 563-579
32. Hamilton G., et al. Bayesian estimation of recent migration rates after a spatial expansion. Genetics 170 (2005) 409-417
33. Allison A.C. Protection afforded by sickle-cell trait against subtertian malarial infection. BMJ 1 (1954) 290-292
34. Voight B.F., et al. A Map of Recent Positive Selection in the Human Genome. PLoS Biol. 4 (2006) 446-458
35. Biswas S., and Akey J.M. Genomic insights into positive selection. Trends Genet. 22 (2006) 437-446
36. Young J.H., et al. Differential susceptibility to hypertension is due to selection during the Out-of-Africa expansion. PLoS Genet. 1 (2005) 730-738
37. Slatkin M., and Bertorelle G. The use of intraallelic variability for testing neutrality and estimating population growth rate. Genetics 158 (2001) 865-874
38. Sabeti P.C., et al. The case for selection at CCR5-Δ32. PLoS Biol. 3 (2005) e378
39. Prugnolle F., et al. Pathogen-driven selection and worldwide HLA class I diversity. Curr. Biol. 15 (2005) 1022-1027
40. Sabeti P.C., et al. Positive natural selection in the human lineage. Science 312 (2006) 1614-1620
41. Teshima K.M., et al. How reliable are empirical genomic scans for selective sweeps?. Genome Res. 16 (2006) 702-712
42. Fisher R.A. The wave of advance of advantageous genes. Ann. Eugen. 7 (1937) 353-369
43. Edmonds C.A., et al. Mutations arising in the wave front of an expanding population. Proc. Natl. Acad. Sci. U. S. A. 101 (2004) 975-979
44. Klopfstein S., et al. The fate of mutations surfing on the wave of a range expansion. Mol. Biol. Evol. 23 (2006) 482-490
45. Evans P.D., et al. Microcephalin, a gene regulating brain size, continues to evolve adaptively in humans. Science 309 (2005) 1717-1720
46. Currat M., et al. Comment on "Ongoing adaptive evolution of ASPM, a brain size determinant in homo sapiens" and "Microcephalin, a gene regulating brain size, continues to evolve adaptively in humans". Science 313 (2006) 172
47. Yu F., et al. Comment on "Ongoing Adaptive Evolution of ASPM, a Brain Size Determinant in Homo sapiens. Science 316 (2007) 370b
48. Novembre J., et al. The geographic spread of the CCR5 Delta 32 HIV-resistance allele. PLoS Biol. 3 (2005) 1954-1962
49. Rosenberg N.A., et al. Clines, clusters, and the effect of study design on the inference of human population structure. PloS Genet. 1 (2005) 660-671
50. Serre D., and Pääbo S.P. Evidence for gradients of human genetic diversity within and among continents. Genome Res. 14 (2004) 1679-1685
51. Witherspoon D.J., et al. Human population genetic structure and diversity inferred from polymorphic L1 (LINE-1) and Alu insertions. Hum. Hered. 62 (2006) 30-46
52. Rosenberg N.A., et al. Low levels of genetic divergence across geographically and linguistically diverse populations from India. PLoS Genet. 2 (2006) 2052-2061
53. Burney D.A., and Flannery T.F. Fifty millennia of catastrophic extinctions after human contact. Trends Ecol. Evol. 20 (2005) 395-401
54. Guillot G., et al. A spatial statistical model for landscape genetics. Genetics 170 (2005) 1261-1280
55. Foll M., and Gaggiotti O.E. Identifying the environmental factors that determine the genetic structure of populations. Genetics 174 (2006) 875-891
56. Francois O., et al. Bayesian clustering using hidden Markov random fields in spatial population genetics. Genetics 174 (2006) 805-816
57. Miller M.P. Alleles In Space (AIS): Computer software for the joint analysis of interindividual spatial and genetic Information. J. Hered. 96 (2005) 722-724
58. Storfer A., et al. Putting the "landscape" in landscape genetics. Heredity 98 (2007) 128-142
59. Mantel N. The detection of disease clustering and a generalized regression approach. Cancer Res. 27 (1967) 209-220
60. Legendre P., and Legendre L. Numerical Ecology (1998), Elsevier
61. Raufaste N., and Rousset F. Are partial mantel tests adequate?. Evolution Int. J. Org. Evolution 55 (2001) 1703-1705
62. Rosenberg N.A. Standardized subsets of the HGDP-CEPH Human Genome Diversity Cell Line Panel, accounting for atypical and duplicated samples and pairs of close relatives. Ann. Hum. Genet. 70 (2006) 841-847
63. Pritchard J.K., et al. Inference of population structure using multilocus genotype data. Genetics 155 (2000) 945-959
64. Kittles R.A., and Weiss K.M. Race, ancestry, and genes: implications for defining disease risk. Annu. Rev. Genomics Hum. Genet. 4 (2003) 33-67
65. Gayden T., et al. The Himalayas as a directional barrier to gene flow. Am. J. Hum. Genet. 80 (2007) 884-894
66. Shriver M.D., et al. Large-scale SNP analysis reveals clustered and continuous patterns of human genetic variation. Hum. Genomics 2 (2005) 81-89
67. Nievergelt C.M., et al. Generalized analysis of molecular variance. PLoS Genet. 3 (2007) 467-478
68. Butty V., et al. Signatures of strong population differentiation shape extended haplotypes across the human CD28, CTLA4, and ICOS costimulatory genes. Proc. Natl. Acad. Sci. U. S. A. 104 (2007) 570-575
69. Wright S. The genetical structure of populations. Annals of Eugenics 15 (1951) 323-354
70. Nei M. Molecular Evolutionary Genetics (1987), Columbia University Press p. 164
71. Wright S. Evolution in Mendelian populations. Genetics 16 (1931) 97-159