Inland post-glacial dispersal in East Asia revealed by mitochondrial haplogroup M9a'b

BMC Biology

Volumn 9, Issue , 2011, Pages

  Peng, Min Sheng ^a,b,e   Palanichamy, Malliya G ^c   Yao, Yong Gang ^a   Mitra, Bikash ^c,d   Cheng, Yao Ting ^a,b,e   Zhao, Mian ^a,b,e   Liu, Jia ^c   Wang, Hua Wei ^c   Pan, Hui ^a,b,e   Wang, Wen Zhi ^a,b,e   Zhang, A Mei ^a,e   Zhang, Wen ^a,e   Wang, Dong ^a,e   Zou, Yang ^a,e   Yang, Yang ^c   Chaudhuri, Tapas K ^d   Kong, Qing Peng ^a,b   Zhang, Ya Ping ^a,b,c  

^a KUNMING INSTITUTE OF ZOOLOGY   (China)

^b And Molecular Research in Common Diseases ^*  (China)

^c YUNNAN UNIVERSITY   (China)

^d UNIVERSITY OF NORTH BENGAL   (India)

^e UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

Author keywords

[No Author keywords available]

Indexed keywords

MITOCHONDRIAL DNA;

ARTICLE; ASIAN; FAR EAST; GENETIC VARIABILITY; GENETICS; HAPLOTYPE; HUMAN; MIGRATION; MOLECULAR EVOLUTION; PHYLOGENY; PHYLOGEOGRAPHY; SOUTHEAST ASIA;

ASIA, SOUTHEASTERN; ASIAN CONTINENTAL ANCESTRY GROUP; DNA, MITOCHONDRIAL; EMIGRATION AND IMMIGRATION; EVOLUTION, MOLECULAR; FAR EAST; GENETIC VARIATION; HAPLOTYPES; HUMANS; PHYLOGENY; PHYLOGEOGRAPHY;

EID: 78650985826     PISSN: None     EISSN: 17417007     Source Type: Journal    
DOI: 10.1186/1741-7007-9-2     Document Type: Article

References (62)

1. Clark PU, Dyke AS, Shakun JD, Carlson AE, Clark J, Wohlfarth B, Mitrovica JX, Hostetler SW, McCabe AM. The Last Glacial Maximum. Science 2009, 325:710-714.
2. Forster P. Ice Ages and the mitochondrial DNA chronology of human dispersals: a review. Philos Trans R Soc Lond B Biol Sci 2004, 359:255-264. 1693320, 15101581.
3. Barton LW, Brantingham PJ, Ji D. Late Pleistocene climate change and Paleolithic cultural evolution in northern China: implications from the Last Glacial Maximum. Late Quaternary Climate Change and Human Adaptation in Arid China 2007, 9:105-128. Amsterdam: Elsevier, Madsen DB, Chen F, Gao X, (van der Meer J (Series Editor): Developments in Quaternary Science).
4. Xu PF, Yan WM, Wang YP, Zhang ZP, Shao WP, Chang KC, Lu LC, Xu H, Wang RX. The Formation of Chinese Civilization: An Archaeological Perspective. 2004, Beijing, New Haven/London: New World Press, Yale University Press.
5. Chen S. Environment adaptation and diffusion of North China humans in Late Pleistocene. Quaternary Sci 2006, 26:522-533.
6. Xing G, Yuan BY, Pei SW, Wang HM, Chen FY, Feng XW. Analysis of sedimentary-geomorphologic variation and the living environment of hominids at the Shuidonggou Paleolithic site. Chin Sci Bull 2008, 53:2025-2032.
7. Ji D, Chen F, Betinnger RL, Elson RG, Geng Z, Barton L, Wang H, An C, Zhang D. Human response to the Last Glacial Maximum: evidence from North China. Acta Anthropol Sin 2005, 24:270-282.
8. Goebel T. The "Microblade Adaptation" and recolonization of Siberia during the Late Upper Pleistocene. Archeological Papers of the American Anthropological Association 2002, 12:117-131.
9. Underhill PA, Kivisild T. Use of Y chromosome and mitochondrial DNA population structure in tracing human migrations. Annu Rev Genet 2007, 41:539-564.
10. Renfrew C. Archaeogenetics - towards a 'new synthesis'?. Curr Biol 2010, 20:R162-165.
11. Soares P, Achilli A, Semino O, Davies W, Macaulay V, Bandelt HJ, Torroni A, Richards MB. The archaeogenetics of Europe. Curr Biol 2010, 20:R174-R183.
12. Černý V, Mulligan CJ, Fernandes V, Silva NM, Alshamali F, Nourdin Harich AN, Cherni L, El Gaaied AB, Al-Meeri A, Pereira L. Internal diversification of mitochondrial haplogroup R0a reveals post-Last Glacial Maximum demographic expansions in South Arabia. Mol Biol Evol 2011, 28:71-78.
13. Kumar S, Padmanabham PB, Ravuri RR, Uttaravalli K, Koneru P, Mukherjee PA, Das B, Kotal M, Xaviour D, Saheb SY, Rao VR. The earliest settlers' antiquity and evolutionary history of Indian populations: evidence from M2 mtDNA lineage. BMC Evol Biol 2008, 8:230. 2528015, 18691441.
14. Soares P, Trejaut JA, Loo JH, Hill C, Mormina M, Lee CL, Chen YM, Hudjashov G, Forster P, Macaulay V, Bulbeck D, Oppenheimer S, Lin M, Richards MB. Climate change and postglacial human dispersals in Southeast Asia. Mol Biol Evol 2008, 25:1209-1218.
15. Zhao M, Kong QP, Wang HW, Peng MS, Xie XD, Wang WZ, Duan JG, Cai MC, Zhao SN, Tu YQ, Wu SF, Yao YG, Bandelt HJ, Zhang YP. Mitochondrial genome evidence reveals successful Late Paleolithic settlement on the Tibetan Plateau. Proc Natl Acad Sci USA 2009, 106:21230-21235. 2795552, 19955425.
16. Qin Z, Yang Y, Kang L, Yan S, Cho K, Cai X, Lu Y, Zheng H, Zhu D, Fei D, Li S, Jin L, Li H, . Genographic Consortium A mitochondrial revelation of early human migrations to the Tibetan Plateau before and after the last glacial maximum. Am J Phys Anthropol 2010, 143:555-569. Genographic Consortium.
17. Fornarino S, Pala M, Battaglia V, Maranta R, Achilli A, Modiano G, Torroni A, Semino O, Santachiara-Benerecetti SA. Mitochondrial and Y-chromosome diversity of the Tharus (Nepal): a reservoir of genetic variation. BMC Evol Biol 2009, 9:154. 2720951, 19573232.
18. Chandrasekar A, Kumar S, Sreenath J, Sarkar BN, Urade BP, Mallick S, Bandopadhyay SS, Barua P, Barik SS, Basu D, Kiran U, Gangopadhyay P, Sahani R, Prasad BV, Gangopadhyay S, Lakshmi GR, Ravuri RR, Padmaja K, Venugopal PN, Sharma MB, Rao VR. Updating phylogeny of mitochondrial DNA macrohaplogroup M in India: dispersal of modern human in South Asian corridor. PLoS ONE 2009, 4:e7447. 2757894, 19823670.
19. Reddy BM, Langstieh BT, Kumar V, Nagaraja T, Reddy ANS, Meka A, Reddy AG, Thangaraj K, Singh L. Austro-Asiatic tribes of Northeast India provide hitherto missing genetic link between South and Southeast Asia. PLoS ONE 2007, 2:e1141. 2065843, 17989774.
20. Tanaka M, Cabrera VM, González AM, Larruga JM, Takeyasu T, Fuku N, Guo LJ, Hirose R, Fujita Y, Kurata M, Shinoda K, Umetsu K, Yamada Y, Oshida Y, Sato Y, Hattori N, Mizuno Y, Arai Y, Hirose N, Ohta S, Ogawa O, Tanaka Y, Kawamori R, Shamoto-Nagai M, Maruyama W, Shimokata H, Suzuki R, Shimodaira H. Mitochondrial genome variation in Eastern Asia and the peopling of Japan. Genome Res 2004, 14:1832-1850. 524407, 15466285.
21. Kong QP, Bandelt HJ, Sun C, Yao YG, Salas A, Achilli A, Wang CY, Zhong L, Zhu CL, Wu SF, Torroni A, Zhang YP. Updating the East Asian mtDNA phylogeny: a prerequisite for the identification of pathogenic mutations. Hum Mol Genet 2006, 15:2076-2086.
22. van Oven M, Kayser M. Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation. Hum Mutat 2009, 30:E386-E394.
23. Cox MP. Accuracy of molecular dating with the rho statistic: deviations from coalescent expectations under a range of demographic models. Hum Biol 2008, 80:335-357.
24. Endicott P, Ho SY, Metspalu M, Stringer C. Evaluating the mitochondrial timescale of human evolution. Trends Ecol Evol 2009, 24:515-521.
25. Xue F, Wang Y, Xu S, Zhang F, Wen B, Wu X, Lu M, Deka R, Qian J, Jin L. A spatial analysis of genetic structure of human populations in China reveals distinct difference between maternal and paternal lineages. Eur J Hum Genet 2008, 16:705-717.
26. Guangxi Liuzhou Science Museum of Bailiandong Lava-Caves (Ed.) Bailiandong in Liuzhou 2009, Beijing: Science Press, Guangxi Liuzhou Science Museum of Bailiandong Lava-Caves (Ed.).
27. Ha VT. The Hoabinhian and before. Bull IPPA 1997, 16:35-41.
28. Su B, Xiao CJ, Deka R, Seielstad MT, Kangwanpong D, Xiao JH, Lu DR, Underhill P, Cavalli-Sforza L, Chakraborty RJ, Jin L. Y chromosome haplotypes reveal prehistorical migrations to the Himalayas. Hum Genet 2000, 107:582-590.
29. Gayden T, Cadenas AM, Regueiro M, Singh NB, Zhivotovsky LA, Underhill PA, Cavalli-Sforza LL, Herrera RJ. The Himalayas as a directional barrier to gene flow. Am J Hum Genet 2007, 80:884-894. 1852741, 17436243.
30. Balloux F, Handley LJL, Jombart T, Liu H, Manica A. Climate shaped the worldwide distribution of human mitochondrial DNA sequence variation. Proc Biol Sci 2009, 276:3447-3455. 2817182, 19586946.
31. Kivisild T, Tolk HV, Parik J, Wang YM, Papiha SS, Bandelt HJ, Villems R. The emerging limbs and twigs of the East Asian mtDNA tree. Mol Biol Evol 2002, 19:1737-1751.
32. Yao YG, Kong QP, Bandelt HJ, Kivisild T, Zhang YP. Phylogeographic differentiation of mitochondrial DNA in Han Chinese. Am J Hum Genet 2002, 70:635-651. 384943, 11836649.
33. Ballinger SW, Schurr TG, Torroni A, Gan YY, Hodge JA, Hassan K, Chen KH, Wallace DC. Southeast Asian mitochondrial DNA analysis reveals genetic continuity of ancient mongoloid migrations. Genetics 1992, 130:139-152. 1204787, 1346259.
34. Torroni A, Miller JA, Moore LG, Zamudio S, Zhuang J, Droma T, Wallace DC. Mitochondrial DNA analysis in Tibet: implications for the origin of the Tibetan population and its adaptation to high altitude. Am J Phys Anthropol 1994, 93:189-199.
35. Gorman C. The Hoabinhian and after: subsistence patterns in Southeast Asia during the late Pleistocene and early recent periods. World Archaeol 1971, 2:300-320.
36. Tong EZ, Hutterer KL. The Mesolithic period in South China and Southeast Asia. Southern Civilization 2004, 58-87. Chongqing: Chongqing Publishing House, Tong EZ.
37. Hill C, Soares P, Mormina M, Macaulay V, Meehan W, Blackburn J, Clarke D, Raja JM, Ismail P, Bulbeck D, Oppenheimer S, Richards M. Phylogeography and ethnogenesis of aboriginal Southeast Asians. Mol Biol Evol 2006, 23:2480-2491.
38. Karafet TM, Hallmark B, Cox MP, Sudoyo H, Downey S, Lansing JS, Hammer MF. Major east-west division underlies Y chromosome stratification across Indonesia. Mol Biol Evol 2010, 27:1833-1844.
39. Gao F. Excavation of remains from Nanminan cave sites, Jinghong. Exploring Historical Footprints, Protecting Cultural Relics: In Memory of the 50th Anniversary of Yunnan Provincial Institute of Cultural Relics and Archaeology 2009, 31-34. Kunming: Yunnan Publishing Group. Kunming: Yunnan Publishing Group, Yunnan Education Publishing House, the Yunnan Provincial Institute of Cultural Relics and Archaeology.
40. Sharma HC. Prehistoric archaeology of the North-East. The Anthropology of North-East India 2003, 11-30. New Delhi: Orient Longman Private Limited, Subba TB, Ghosh GC.
41. Corvinus G. The prehistory of Nepal after 10 years of research. Bull IPPA 1996, 14:43-55.
42. Zöller L. Chronology of upper Pleistocene "red silts" in the Siwalik system and constraints for the timing of the upper palaeolithic in Nepal. Catena 2000, 41:229-235.
43. Boaretto E, Wu X, Yuan J, Bar-Yosef O, Chu V, Pan Y, Liu K, Cohen D, Jiao T, Li S, Gu H, Goldberg P, Weiner S. Radiocarbon dating of charcoal and bone collagen associated with early pottery at Yuchanyan Cave, Hunan Province, China. Proc Natl Acad Sci USA 2009, 106:9595-9600. 2689310, 19487667.
44. van Driem G. Tibeto-Burman vs Indo-Chinese: implications for population geneticists, archaeologists and prehistorians. The Peopling of East Asia Putting Together Archaeology, Linguistics and Genetics 2005, 81-106. London and New York: RoutledgeCurzon, Sagart L, Blench R, Sanchez-Mazas A.
45. Chaubey G, Metspalu M, Choi Y, Magi R, Romero IG, Soares P, van Oven M, Behar DM, Rootsi S, Hudjashov G, Mallick CB, Karmin M, Nelis M, Parik J, Reddy AG, Metspalu E, van Driem G, Xue Y, Tyler-Smith C, Thangaraj K, Singh L, Remm M, Richards MB, Lahr MM, Kayser M, Villems R, Kivisild T. Population genetic structure in Indian Austroasiatic speakers: the role of landscape barriers and sex-specific admixture. Mol Biol Evol
46. Achilli A, Rengo C, Magri C, Battaglia V, Olivieri A, Scozzari R, Cruciani F, Zeviani M, Briem E, Carelli V, Moral P, Dugoujon JM, Roostalu U, Loogväli EL, Kivisild T, Bandelt HJ, Richards M, Villems R, Santachiara-Benerecetti AS, Semino O, Torroni A. The molecular dissection of mtDNA haplogroup H confirms that the Franco-Cantabrian glacial refuge was a major source for the European gene pool. Am J Hum Genet 2004, 75:910-918. 1182122, 15382008.
47. Yao YG, Kong QP, Wang CY, Zhu CL, Zhang YP. Different matrilineal contributions to genetic structure of ethnic groups in the Silk Road region in China. Mol Biol Evol 2004, 21:2265-2280.
48. Wang HW, Jia XY, Ji YL, Kong QP, Zhang QJ, Yao YG, Zhang YP. Strikingly different penetrance of LHON in two Chinese families with primary mutation G11778A is independent of mtDNA haplogroup background and secondary mutation G13708A. Mutat Res 2008, 643:48-53.
49. Fendt L, Zimmermann B, Daniaux M, Parson W. Sequencing strategy for the whole mitochondrial genome resulting in high quality sequences. BMC Genomics 2009, 10:139. 2669098, 19331681.
50. Kong QP, Salas A, Sun C, Fuku N, Tanaka M, Zhong L, Wang CY, Yao YG, Bandelt HJ. Distilling artificial recombinants from large sets of complete mtDNA genomes. PLoS ONE 2008, 3:e3016. 2515346, 18714389.
51. Yao YG, Salas A, Logan I, Bandelt HJ. mtDNA data mining in GenBank needs surveying. Am J Hum Genet 2009, 85:929-933. 2790564, 20004768.
52. Andrews RM, Kubacka I, Chinnery PF, Lightowlers RN, Turnbull DM, Howell N. Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA. Nat Genet 1999, 23:147.
53. Bandelt HJ, Parson W. Consistent treatment of length variants in the human mtDNA control region: a reappraisal. Int J Legal Med 2008, 122:11-21.
54. Pereira L, Freitas F, Fernandes V, Pereira JB, Costa MD, Costa S, Maximo V, Macaulay V, Rocha R, Samuels DC. The diversity present in 5140 human mitochondrial genomes. Am J Hum Genet 2009, 84:628-640. 2681004, 19426953.
55. Fan L, Yao YG. MitoTool: a web server for the analysis and retrieval of human mitochondrial DNA sequence variations. Mitochondrion 2010,
56. Bandelt HJ, Forster P, Röhl A. Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol 1999, 16:37-48.
57. Cavalli-Sforza LL, Menozzi P, Piazza A. The History and Geography of Human Genes. 1994, Princeton: Princeton University Press.
58. Forster P, Harding R, Torroni A, Bandelt HJ. Origin and evolution of native American mtDNA variation: a reappraisal. Am J Hum Genet 1996, 59:935-945. 1914796, 8808611.
59. Saillard J, Forster P, Lynnerup N, Bandelt HJ, Norby S. mtDNA variation among Greenland Eskimos: the edge of the Beringian expansion. Am J Hum Genet 2000, 67:718-726. 1287530, 10924403.
60. Soares P, Ermini L, Thomson N, Mormina M, Rito T, Röhl A, Salas A, Oppenheimer S, Macaulay V, Richards MB. Correcting for purifying selection: an improved human mitochondrial molecular clock. Am J Hum Genet 2009, 84:740-759. 2694979, 19500773.
61. Loogväli EL, Kivisild T, Margus T, Villems R. Explaining the imperfection of the molecular clock of hominid mitochondria. PLoS ONE 2009, 4:e8260. 2794369, 20041137.
62. Ji Y, Zhang AM, Jia X, Zhang YP, Xiao X, Li S, Guo X, Bandelt HJ, Zhang Q, Yao YG. Mitochondrial DNA haplogroups M7b1'2 and M8a affect clinical expression of leber hereditary optic neuropathy in Chinese families with the m.11778G--> A mutation. Am J Hum Genet 2008, 83:760-768. 2668067, 19026397.