Peopling of Sahul: mtDNA variation in Aboriginal Australian and Papua New Guinean populations

American Journal of Human Genetics

Volumn 65, Issue 3, 1999, Pages 808-828

  Redd, Alan J ^a,c   Stoneking, Mark ^a,b  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b MAX PLANCK INSTITUTE FOR EVOLUTIONARY ANTHROPOLOGY   (Germany)

^c UNIVERSITY OF ARIZONA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MITOCHONDRIAL DNA;

ABORIGINE; ARTICLE; AUSTRALIA; DNA PROBE; GENE CLUSTER; GENE SEQUENCE; HAPLOTYPE; HUMAN; HUMAN CELL; MAJOR CLINICAL STUDY; PAPUA NEW GUINEA; POPULATION GENETICS; PRIORITY JOURNAL;

EID: 0033358569     PISSN: 00029297     EISSN: None     Source Type: Journal    
DOI: 10.1086/302533     Document Type: Article

References (87)

1. Anderson S, Bankier AT, Barrell BG, de Bruijn MHL, Coulson AR, Drouin J, Eperon IC, et al (1981) Sequence and organization of the human mitochondrial genome. Nature 290:457-465
2. Aris-Brosou S, Excoffier L (1996) The impact of population expansion and mutation rate heterogeneity on DNA sequence polymorphism. Mol Biol Evol 13:494-504
3. Bellwood PS (1989) The colonization of the Pacific: some current hypotheses. In: Hill AVS, Serjeantson SW (eds) The colonization of the Pacific: a genetic trail. Oxford University Press, New York, pp 1-59
4. Betty DJ, Chin-Atkins AN, Croft L, Sraml M, Easteal S (1996) Multiple independent origins of the COII/tRNA[IPQ] intergenic 9-bp mtDNA deletion in Aboriginal Australians. Am J Hum Genet 58:428-433
5. Birdsell JB (1993) Microevolutionary patterns in Aboriginal Australia: a gradiant analysis of clines. Oxford University Press, New York, pp 22-23
6. - (1967) Preliminary data on the trihybrid origin of the Australian Aborigines. Archeology and Physical Anthropology in Oceania 2:100-155
7. - (1957) Some population problems involving Pleistocene man. Cold Spring Harbor Symposium on Quantitative Biology 22:47-69
8. Bonatto SL, Salzano FM (1997) Diversity and age of the four major mtDNA haplogroups, and their implications for the peopling of the New World. Am J Hum Genet 61:1413-1423
9. Brown P (1997) Australian paleoanthropology. In: Spencer F (ed) History of physical anthropology. Vol 1. Garland, New York, pp 138-145
10. Cavalli-Sforza LL, Menozzi P, Piazza A (1994) The history and geography of human genes. Princeton University Press, Princeton, pp 77-79
11. Chen LZ, Easteal S, Board PG, Kirk RL (1992) Genetic affinities of Oceanic populations based on RFLP and haplotype analysis of genetic loci on three chromosomes. Hum Biol 64:1-15
12. Corbett L (1995) The dingo in Australia and Asia. Cornell University Press, New York, 9-17
13. Dixon RMW (1980) The languages of Australia. Cambridge University Press, New York, 1, 19-20, 234-236
14. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791
15. Foley WA (1986) The Papuan languages of New Guinea. Cambridge University Press, New York, pp 1-14
16. Foran DR, Hixson JE, Brown WM (1988) Comparisons of ape and human sequences that regulate mitochondrial DNA transcription and D-loop DNA synthesis. Nucleic Acids Res 16:5841-5861
17. Gao X, Serjeantson SW (1991) Diversity in HLA-DR4-related DR, DQ haplotypes in Australia, Oceania, and China. Hum Immunol 32:269-276
18. Glover IC, Presland G (1985) Microliths in Indonesian f aked stone industries. In: Misra VN, Bellwood P (eds) Recent advances in Indo-Pacific prehistory. Oxford and IBH, New Delhi, pp 185-195
19. Gollan K (1985) Prehistoric dogs in Australia: an Indian origin? In: Misra VN, Bellwood P (eds) Recent advances in Indo-Pacific prehistory. Oxford and IBH, New Delhi, pp 439-443
20. Graven L, Passarino G, Semino O, Boursot P, Santachiara-Benerecetti S, Langaney A, Excoffier L (1995) Evolutionary correlation between control region sequence and restriction polymorphisms in the mitochondrial genome of a large Senegalese Mandenka sample. Mol Biol Evol 12:334-345
21. Groube L, Chappell J, Muke J, Price D (1986) A 40,000-year-old human occupation site at Huon Peninsula, Papua New Guinea. Nature 324:453-455
22. Hanihara T (1996) Comparison of craniofacial features of major human groups. Am J Phys Anthrop 99:389-412
23. Harpending H (1994) Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution. Hum Biol 66:591-600
24. Harpending H, Relethford J, Sherry ST (1996) Methods and models for understanding human diversity. In: Boyce AJ, Mascie-Taylor CGN (eds) Molecular biology and human diversity. Cambridge University Press, New York, pp 283-299
25. Harpending HC, Sherry ST, Rogers AR, Stoneking M (1993) The genetic structure of ancient human populations. Curr Anthropol 34:483-496
26. Hertzberg M, Mickleson KNP, Serjeantson SW, Prior JF, Trent RJ (1989) An Asian-specific 9-bp deletion of mitochondrial DNA is frequently found in Polynesians. Am J Hum Genet 44:504-510
27. Horai S, Hayasaka K, Kondo R, Tsugane K, Takahata N (1995) Recent African origin of modern humans revealed by complete sequences of hominoid mitochondrial DNAs. Proc Natl Acad Sci USA 92:532-536
28. Howells WW (1989) Skull shapes and the map: craniometric analyses in the dispersion of modern Homo. Harvard University Press, Cambridge, 37-79
29. Johnson BJ, Miller GH, Fogel ML, Magee JW, Gagan MK, Chivas AR (1999) 65,000 years of vegetation change in central Australia and the Australian summer monsoon. Science 284:1150-1152
30. Jones R (1995) Tasmanian archaeology: establishing the sequences. Annu Rev Anthropol 24:423-446
31. Keats B (1977) Genetic structure of the indigenous populations in Australia and New Guinea. J Hum Evol 6:319-339
32. Kirk RL (1989) Population genetic studies in the Pacific: red cell antigen, scrum protein, and enzyme systems. In: Hill AVS, Serjeantson SW (eds) The colonization of the Pacific: a genetic trail. Oxford University Press, New York, pp 60-119
33. Kirk RL, Thorne AG (eds) (1976) The origin of the Australians. Humanities, New Jersey, 277-346, 379-410
34. Kocher TD, Wilson AC (1991) Sequence evolution of mitochondrial DNA in humans and chimpanzees: control region and a protein-coding region. In: Osawa S, Honjo T (eds) Evolution of life: fossils, molecules and culture. Springer, New York, pp 391-413
35. Krings M, Geisert H, Schmitz RW, Krainitzki H, Pääbo S (1999) DNA sequence of the mitochondrial hypervariable region II from the Neandertal type specimen. Proc Natl Acad Sci USA 96:5581-5585
36. Krings M, Stone A, Schmitz RW, Krainitzki H, Stoneking M, Pääbo S (1997) Neandertal DNA sequences and the origin of modern humans. Cell 90:19-30
37. Kruskal JB (1964) Multidimensional scaling by optimizing goodness of fit to a nonmetric hypothesis. Psychometrika 29:1-27
38. Kumar S, Tamura K, Nei M (1993) MEGA: molecular evolutionary genetics analysis, version 1.01. The Pennsylvania State University, University Park
39. Mantel NA (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27:209-220
40. Melton T, Peterson R, Redd AJ, Saha N, Sofro ASM, Martinson J, Stoneking M (1995) Polynesian genetic affinities with southeast Asian populations as identified by mtDNA analysis. Am J Hum Genet 57:403-414
41. Miller GH, Magee JW, Johnson BJ, Fogel ML, Spooner NA, McCulloch MT, Ayliffe LK (1999) Pleistocene extinction of Genyornis newtoni: human impact on Australian megafauna. Science 283:205-208
42. Moutain JL, Cavalli-Sforza LL (1997) Multilocus genotypes, a tree of individuals, and human evolutionary history. Am J Hum Genet 61:705-718
43. Mountain JL, Hebert JM, Bhattacharyya S, Underhill PA, Ottolenghi C, Gadgil M, Cavalli-Sforza LL (1995) Demographic history of India and mtDNA-sequence diversity. Am J Hum Genet 56:979-992
44. Nei M (1987) Molecular evolutionary genetics. Columbia University Press, New York
45. Nei M, Jin L (1989) Variances of the average numbers of nucleotide substitutions within and between populations. Mol Biol Evol 6:290-300
46. Nei M, Roychoudhury AK (1993) Evolutionary relationships of human populations on a global scale. Mol Biol Evol 10:927-943
47. Nichols J (1994) The spread of language around the Pacific rim. Evol Anthropol 3:206-215
48. O'Cornnell JF, Allen J (1998) When did humans first arrive in greater Australia and why is it important to know? Evol Anthropol 6:132-146
49. Piercy R, Sullivan KM, Benson N, Gill P (1993) The application of mitochondrial DNA typing to the study of white Caucasian genetic identification. Int J Legal Med 106:85-90
50. Pietrusewsky M (1994) Pacific-Asian relationships: a physical anthropological perspective. Oceanic Linguistics 33:407-429
51. Raymond M, Rousset F (1995) An exact test for population differentiation. Evolution 49:1280-1283
52. Redd AJ, Takezaki N, Sherry ST, McGarvey ST, Sofro ASM, Stoneking M (1995) Evolutionary history of the COII/tRNA[IPQ] intergenic 9 base pair deletion in human mitochondrial DNAs from the Pacific. Mol Biol Evol 12:604-615
53. Roberts RG, Jones R (1994) Luminescence dating of sediments: new light on the human colonisation of Australia. Australian Aboriginal Studies 2:2-17
54. Roberts RG, Jones R, Smith MA (1990) Thermoluminescence dating of a 50,000-year-old human occupation site in northern Australia. Nature 345:153-156
55. Roberts-Thomson JM, Martinson JJ, Norwich JT, Harding RM, Clegg JB, Boettcher B (1996) An ancient common origin of Aboriginal Australians and New Guinean highlanders is supported by α-globin haplotype analysis. Am J Hum Genet 58:1017-1024
56. Rogers AR (1995) Genetic evidence for a Pleistocene population explosion. Evolution 49:608-615
57. Rogers AR, Harpending H (1992) Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol 9:552-569
58. Rohlf FJ, Sokal RR (1981) Comparing numerical taxonomicstudies. Syst Zool 30:459-490
59. Roychoudhury AK (1984) Genetic relationship between Indian tribes and Australian Aboriginals. Hum Hered 34:314-320
60. Rzhetsky A, Nei M (1992) A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 9: 945-967
61. - (1993) Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10:1073-1095
62. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
63. Serjeantson SW (1989) HLA genes and antigens. In: Hill AVS, Serjeantson SW (eds) The colonization of the Pacific: a genetic trail. Oxford University Press, New York, pp 120-173
64. - (1985) Migration and admixture in the Pacific: insights provided by human leukocyte antigens. In: Kirk RL, Szathmary E (eds) Out of Asia: peopling the Americas and the Pacific. Australian National University Press, Canberra, pp 133-145
65. Slatkin M (1995) A measure of population subdivision based on microsatellite allele frequencies. Genetics 139:457-462
66. Stoneking M, Fontius JJ, Clifford SL, Soodyall H, Arcot SS, Saha N, Jenkins T, et al (1997) Alu insertion polymorphisms and human evolution: evidence for a larger population size in Africa. Genome Res 7:1061-1071
67. Stoneking M, Hedgecock D, Higuchi RG, Vigilant L, Erlich HA (1991) Population variation of human mtDNA control region sequences detected by enzymatic amplification and sequence-specific oligonucleotide probes. Am J Hum Genet 48:370-382
68. Stoneking M, Jorde LB, Bhatia K, Wilson AC (1990) Geographic variation in human mitochondrial DNA from Papua New Guinea. Genetics 124:717-733
69. Stoneking M, Sherry ST, Redd AJ, Vigilant L (1992) New approaches to dating suggest a recent age for the human mtDNA ancestor. Philos Trans R Soc Lond B 337:167-175
70. Stoneking M, Wilson AC (1989) Mitochondrial DNA. In: Hill AVS, Serjeantson SW (eds) The colonization of the Pacific: a genetic trail. Oxford University Press, New York, pp 215-245
71. Sykes B, Leiboff A, Low-Beer J, Tetzner S, Richards M (1995) The origins of the Polynesians: an interpretation from mitochondrial lineage analysis. Am J Hum Genet 57:1463-1475
72. Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585-595
73. Tajima M, Takezaki N (1994) Estimation of evolutionary distance for reconstructing molecular phylogenetic trees. Mol Biol Evol 11:278-286
74. Takezaki N, Rzhetsky A, Nei M (1995) Phylogenetic test of the molecular clock and linearized trees. Mol Biol Evol 12:823-833
75. Tamura K, Nei M (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10:512-526
76. Thorne A, Grün R, Mortimer G, Spooner NA, Simpson JJ, McCulloch M, Taylor L, et al (1999) Australia's oldest human remains: age of the Lake Mungo 3 skeleton. J Hum Evol 36:591-612
77. Tsintsof AS, Hertzberg MS, Prior JF, Mickleson KNP, Trent RJ (1990) α-globin gene markers identify genetic differences between Australian Aborigines and Melanesians. Am J Hum Genet 46:138-143
78. van Holst Pellekaan S, Frommer M, Sved J, Boettcher E (1998) Mitochondrial control-region sequence variation in Aboriginal Australians. Am J Hum Genet 62:435-449
79. - (1997) Mitochondrial D-loop diversity in Australian riverine and Australian desert Aborigines. Electrophoresis 18:1538-1543
80. Vigilant L, Stoneking M, Harpending H, Hawkes K, Wilson AC (1991) African populations and the evolution of human mitochondrial DNA. Science 253:1503-1507
81. Wakeley J (1996) Distinguishing migration from isolation using the variance of pairwise differences. Theoretical Population Biology 49:369-386
82. - (1993) Substitution rate variation among sites in hypervariable region 1 of human mitochondrial DNA. J Mol Evol 37:613-623
83. White JP, O'Connell JF (1982) A prehistory of Australia, New Guinea and Sahul. Academic Press, New York, pp 76-77, 97-98
84. Wurm SA (1982) Papuan languages of Oceania. Gunter Narr, Tubingen, pp 1-2
85. Yenchitosomanus P, Summers KM, Bhatia KK, Board PG (1986) A single α-globin gene deletion in Australian Aborigines. Aust J Exp Biol Med Sci 64:297-306
86. Yenchitsomanus P, Summers KM, Bhatia KK, Cattani J, Board PG (1985) Extremely high frequencies of α-globin gene deletion in Madang and on Karkar Island, Papua New Guinea. Am J Hum Genet 37:778-784
87. Yoshida M, Ohtsuka R, Nakazawa M, Juji T, and Tokunaga K (1995) HLA-DRB1 frequencies of non-Austronesian-speaking Gidra in South New Guinea and their genetic affinities with Oceanian populations. Am J Phys Anthropol 96:177-181