Possible ancestral structure in human populations

PLoS Genetics

Volumn 2, Issue 7, 2006, Pages 0972-0979

  Plagnol, Vincent ^a   Wall, Jeffrey D ^a  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AFRICA; ARTICLE; CONTROLLED STUDY; DEMOGRAPHY; ECOLOGICAL GENETICS; EUROPE; GENE POOL; GENOTYPE; HUMAN; PLESIOMORPHY; POPULATION DISTRIBUTION; POPULATION GENETIC STRUCTURE; POPULATION GROWTH; POPULATION RESEARCH;

HOMINIDAE;

EID: 33746585377     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.0020105     Document Type: Article

References (36)

1. McBrearty S, Brooks AS (2000) The revolution that wasn't: A new interpretation of the origin of modern human behavior. J Hum Evolution 39: 453-563.
2. Wolpoff MH (1999) Paleoanthropology. New York: Mc Graw-Hill. 878 p.
3. Wolpoff MH, Wu X, Thorne AG (1984) Modern Homo sapiens origins: A general theory of hominid evolution involving the fossil evidence from East Asia. In: In Smith FH, Spencer F, editors. The origins of modern humans: A world survey of the fossil evidence. New York: Liss. pp. 411-483.
4. Stringer CB, Andrews P (1988) Genetic and fossil evidence for the origin of modern Humans. Science 239: 1263-1268.
5. Duarte C, Mauricio J, Pettitt PB, Souto P, Trinkaus E, et al. (1999) The early Upper Paleolithic human skeleton from the Abrigo do Lagar Velho (Portugal) and modern human emergence in Iberia. PNAS 96: 7604-7609.
6. Foley R, Lahr MM (1997) Mode 3 technologies and the evolution of modern humans. Camb Arch 7: 3-36.
7. Brauer G (1984) The Afro-European sapiens hypothesis and hominid evolution in East Asia during the late Middle and Upper Pleistocene. Cour Forschungsinst Senckenb 69: 145-165.
8. Krings M, Stone A, Schmitz RW, Krainitzki H, Stoneking M, et al. (1997) Neandertal DNA sequences and the origin of modern Humans. Cell 90: 19-30.
9. Krings M, Capelli C, Tschentscher F, Geisert H, Meyer S, et al. (2000) A view of Neandertal genetic diversity. Nat Genet 26: 144-146.
10. Serre D, Langaney A, Chech M, Teschler-Nicola M, Paunovic M, et al. (2004) No evidence of Neandertal mtDNA contribution to early modern humans. PLoS Biol 2: e57. DOI: 10.1371/journal.pbio.0020057
11. Ovchinnikov IV, Gotherstrom A, Romanova GP, Kharitonov VM, Liden K, et al. (2000) Molecular analysis of Neanderthal DNA from the Northern Caucasus. Nature 404: 490-493.
12. Nordborg M (1998) On the probability of Neanderthal ancestry. Am J Hum Genet 63: 1237-1240.
13. Noonan JP, Hofreiter M, Smith D, Priest JR, Rohland N, et al. (2005) Genomic sequencing of Pleistocene cave bears. Science 309: 597-599.
14. Poinar HN, Schwarz C, Qi J, Shapiro B, MacPhee RDE, et al. (2006) Metagenomics to paleogenomics: Large-scale sequencing of mammoth DNA. Science 311: 392-394.
15. Wall JD (2000) Detecting ancient admixture in humans using sequence polymorphism data. Genetics 154: 1271-1279.
16. Kong A, Gudbjartsson DF, Sainz J, Jonsdottir GM, Gudjonsson SA, et al. (2002) A high-resolution recombination map of the human genome. Nat Genet 31: 241-247.
17. Voight BF, Adams AM, Frisse LA, Qian Y, Hudson RR, et al. (2005) Interrogating multiple aspects of variation in a full resequencing dataset to infer human population size changes. PNAS 102: 18508-18513.
18. Livingston RJ, Niederhausern A, Jegga AG, Crawford DC, Carlson CS, et al. (2004) Pattern of sequence variation across 213 environmental response genes. Genome Res 14: 1821-1831.
19. Nickerson DA, Rieder MJ, Crawford DC (2003) An overview of the environmental genome project, essays on the future of environmental health research. EHP Online 113.
20. Watterson GA (1975) On the number of segregating sites in genetical models without recombination. Theor Pop Biol 7: 256-276.
21. Hudson RR (2001) Two-locus sampling distributions and their applications. Genetics 159: 1805-1817.
22. Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
23. Hudson RR, Slatkin M, Maddison WP (1992) Estimation of levels of gene flow from DNA sequence data. Genetics 132: 583-589.
24. Griffiths RC, Marjoram P (1996) Ancestral inference from samples of DNA sequences with recombination. J Comp Biol 3: 479-502.
25. Hudson RR (2002) Generating samples under a Wright-Fisher neutral model. Bioinformatics 18: 337-338.
26. Schaffner SF, Foo C, Gabriel S, Reich D, Daly MJ, et al. (2005) Calibrating a coalescent simulation of human genome sequence variation. Genome Res 15: 1576-1583.
27. HapMap (2005) A haplotype map of the human genome. Nature 437: 1299-1320.
28. Garrigan D, Mobasher Z, Severson T, Wilder JA, Hammer MF (2005) Evidence for archaic Asian ancestry on the human X chromosome. Mol Biol Evol 22: 189-192.
29. Barreiro LB, Patin E, Neyrolles O, Cann HM, Gicquel B, et al. (2005) The heritage of pathogen pressures and ancient demography in the human innate-immunity cd209/cd209l region. Am J Hum Genet 77: 869-886.
30. Hayakawa T, Aki I, Varki A, Satta Y, Takahata N (2006) Fixation of the human-specific CMP-N-acetylneuraminic acid hydroxylase pseudogene and implications of haplotype diversity for human evolution. Genetics 172: 1139-1146.
31. Currat M, Excoffier L (2004) Modern humans did not admix with Neanderthals during their range expansion into Europe. PLoS Biol 2 (12): e421.
32. Voight BF, Kudaravalli S, Wen X, Pritchard JK (2006) A map of recent positive selection in the human genome. PLoS Biol 4: e42. DOI: 10.1371/journal.pbio.0040042
33. Clark AG, Glanowsk S, Nielsen R, Thomas PD, Kejariwal A, et al. (2003) Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios. Science 302: 1960-1963.
34. Smith TF, Waterman MS (1981) Identification of common molecular subsequences. J Mol Biol 147: 195-197.
35. Nickerson DA, Taylor SL, Weiss KM, Clark AG, Hutchinson RG, et al. (1995) DNA sequence diversity in a 9.7-kb region of the human lipoprotein lipase gene. Nat Genet 19: 233-240.
36. Rieder MJ, Taylor SL, Clark AG, Nickerson DA (1999) Sequence variation in the human angiotensin converting enzyme. Nat Genet 22: 59-62.