Supplementary table
1. Resources for the mtDNA data of
population samples
http://COMonCA.org.cn/PDF/2009/COMONCA03-003S.doc
Web resources
GenBank,
http://www.ncbi.nlm.nih.gov/Genbank/
CLC Free Workbench
4.5.1,
http://www.clcbio.com/index.php?id=28
Network 4.5.0.0,
http://www.fluxus-engineering.com/sharenet.htm
Sufer 8.0,
http://www.goldensoftware.com/products/surfer/surfer.shtml
References
1.
Hudjashov G, Kivisild T, Underhill PA,
Endicott P, Sanchez JJ, Lin AA, Shen P,
Oefner P, Renfrew C, Villems R, Forster
P (2007)
Revealing the prehistoric settlement of
Australia by Y chromosome and mtDNA
analysis. Proc Natl Acad Sci
USA 104:8726-8730.
2. Metspalu M,
Kivisild T, Bandelt HJ, Richards M,
Villems R (2006)
The
pioneer settlement of modern humans in
Asia. In: Bandelt HJ,
Macaulay V, Richards M (eds) Human
mitochondrial DNA and the evolution of
Homo sapiens. Springer-Verlag, 181–199.
3. Hill C, Soares P,
Mormina M, Macaulay V, Clarke D,
Blumbach P, Vizuete-Forster M, Forster
P, Bulbeck D, Oppenheimer S, Richards M
(2007)
A
Mitochondrial Stratigraphy for Island
Southeast Asia. Am J Hum
Genet 80:29-43.
4. Hill C, Soares P,
Mormina M, Macaulay V, Meehan W,
Blackburn J, Clarke D, Raja JM, Ismail
P, Bulbeck D, Oppenheimer S, Richards M
(2006)
Phylogeography and ethnogenesis of
aboriginal Southeast Asians.
Mol Biol Evol 23:2480-2491.
5. Macaulay V, Hill
C, Achilli A, Rengo C, Clarke D, Meehan
W, Blackburn J, Semino O, Scozzari R,
Cruciani F, Taha A, Shaari NK, Raja JM,
Ismail P, Zainuddin Z, Goodwin W,
Bulbeck D, Bandelt HJ, Oppenheimer S,
Torroni A, Richards M (2005)
Single, rapid coastal settlement of Asia
revealed by analysis of complete
mitochondrial genomes.
Science 308:1034-1036.
6. 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 (2004)
Mitochondrial genome variation in
eastern Asia and the peopling of Japan.
Genome Res 14:1832-1850.
7. Starikovskaya EB,
Sukernik RI, Derbeneva OA, Volodko NV,
Ruiz-Pesini E, Torroni A, Brown MD, Lott
MT, Hosseini SH, Huoponen K, Wallace DC
(2004)
Mitochondrial DNA diversity in
indigenous populations of the southern
extent of Siberia, and the origins of
Native American haplogroups.
Ann Hum Genet 69:67-89.
8. Kong QP, Bandelt
HJ, Sun C, Yao YG, Salas A, Achilli A,
Wang CY, Zhong L, Zhu CL, Wu SF, Torroni
A, Zhang YP (2006)
Updating the East Asian mtDNA phylogeny:
a prerequisite for the identification of
pathogenic mutations. Hum Mol
Genet 15:2076-2086.
9. Wen B, Li H, Lu D,
Song X, Zhang F, He Y, Li F, Gao Y, Mao
X, Zhang L, Qian J, Tan J, Jin J, Huang
W, Deka R, Su B, Chakraborty R, Jin L
(2004)
Genetic evidence supports demic
diffusion of Han culture.
Nature 431:302-305.
10. Li X, Su M, Huang
H, Li H, Tian D, Gao Y (2007)
mtDNA evidence: Genetic background
associated with related populations at
high risk for esophageal cancer between
Chaoshan and Taihang Mountain areas in
China. Genomics 90:474–481.
11. Li H, Cai X,
Winograd-Cort ER, Wen B, Cheng X, Qin Z,
Liu W, Liu Y, Pan S, Qian J, Tan CC, Jin
L(2007)
Mitochondrial DNA Diversity and
Population Differentiation in Southern
East Asia. Am J Phys
Anthropol 134:481–488.
12. Gan RJ, Pan SL,
Mustavich LF, Qin ZD, Cai XY, Qian J,
Liu CW, Peng JH, Li SL, Xu JS, Jin L, Li
H; Genographic Consortium (2008) Pinghua
population as an exception of Han
Chinese's coherent genetic structure.
J Hum Genet 53, 303–313.
13. Yao YG, Kong QP,
Wang CY, Zhu CL, Zhang YP (2004)
Different matrilineal contributions to
genetic structure of ethnic groups in
the silk road region in china.
Mol Biol Evol 21:2265-2280.
14. Palanichamy MG,
Sun C, Agrawal S, Bandelt HJ, Kong QP,
Khan F, Wang CY, Chaudhuri TK, Palla V,
Zhang YP (2004)
Phylogeny of mitochondrial DNA
macrohaplogroup N in India, based on
complete sequencing: implications for
the peopling of South Asia.
Am J Hum Genet 75:966-978.
15.孔庆鹏,张亚平
(2008)
人类线粒体DNA
世系的系统发育关系研究.
生命科学
20:540-548.
16. Ingman M,
Gyllensten U (2007)
Rate
variation between mitochondrial domains
and adaptive evolution in humans.
Hum Mol Genet 16:2281-2287.
17. Kong QP, Yao YG,
Sun C, Bandelt HJ, Zhu CL, Zhang YP
(2003)
Phylogeny of east Asian mitochondrial
DNA lineages inferred from complete
sequences. Am J Hum Genet
73:671-676.
18. Wen B, Xie X, Gao
S, Li H, Shi H, Song X, Qian T, Xiao C,
Jin J, Su B, Lu D, Chakraborty R, Jin L
(2004)
Analyses of Genetic Structure of
Tibeto-Burman Populations Reveals
Sex-Biased Admixture in Southern
Tibeto-Burmans. Am J Hum
Genet 74:856–865.
19. Lee HY, Yoo JE,
Park MJ, Chung U, Kim CY, Shin KJ (2006)
East
Asian mtDNA haplogroup determination in
Koreans: Haplogroup-level coding region
SNP analysis and subhaplogroup-level
control region sequence analysis.
Electrophoresis 27:4408-4418.
20. Derenko M,
Malyarchuk B, Grzybowski T, Denisova G,
Dambueva I, Perkova M, Dorzhu C, Luzina
F, Lee HK, Vanecek T, Villems R,
Zakharov I (2007)
Phylogeographic analysis of
mitochondrial DNA in northern Asian
populations. Am J Hum Genet
81:1025–1041.
21. Volodko NV,
Starikovskaya EB, Mazunin IO, Eltsov NP,
Naidenko PV, Wallace DC, Sukernik RI
(2008)
Mitochondrial genome diversity in arctic
Siberians, with particular reference to
the evolutionary history of Beringia and
Pleistocenic peopling of the Americas.
Am J Hum Genet 82:1084-1100.
22. Yao YG, Kong QP,
Bandelt HJ, Kivisild T, Zhang YP (2002)
Phylogeographic differentiation of
mitochondrial DNA in Han Chinese.
Am J Hum Genet 70:635-651.
23.Wen B, Li H, Gao
S, Mao X, Gao Y, Li F, Zhang F, He Y,
Dong Y, Zhang Y, Huang W, Jin J, Xiao C,
Lu D, Chakraborty R, Su B, Deka R, Jin
L(2004)
Genetic Structure of Hmong-Mien Speaking
Populations in East Asia as Revealed by
mtDNA Lineages. Mol Biol Evol
22:725–734.
24.
王青峰,常城
(2008)
我国藏族人群线粒体DNA系统发育基因组学研究.兰州大学2008届硕士学位论文.
25. Kong QP, Yao YG,
Liu M, Shen SP, Chen C, Zhu CL,
Palanichamy MG, Zhang YP (2003)
Mitochondrial DNA sequence polymorphisms
of five ethnic populations from northern
China. Hum Genet 113:391-405.
26. Reddy BM,
Langstieh BT, Kumar V, Nagaraja T, Reddy
AN, Meka A, Reddy AG, Thangaraj K, Singh
L (2007)
Austro-Asiatic tribes of Northeast India
provide hitherto missing genetic link
between South and Southeast Asia.
PLoS ONE 2(11):e1141.
27.
李彬彬,
钟复光,
易红生,
王先然,
李良芳,
王丽兰,
齐晓岚,
吴立甫
(2007)
贵州侗族､仡佬族､土家族和彝族人群线粒体DNA
多态性研究.
遗传学报
34: 800-811.
28. Saillard J,
Forster P, Lynnerup N, Bandelt HJ, Nørby
S (2000)
mtDNA variation among Greenland Eskimos:
the edge of the Beringian expansion.
Am J Hum Genet 67:718-726.
29. Trejaut JA,
Kivisild T, Loo JH, Lee CL, He CL, Hsu
CJ, Lee ZY, Lin M (2005)
Traces of archaic mitochondrial lineages
persist in Austronesian-speaking
Formosan populations. PLoS
Biol 3(8):e247.
30. Oota H, Kitano T,
Jin F, Yuasa I, Wang L, Ueda S, Saitou
N, Stoneking M.(2002)Extreme
mtDNA Homogeneity in Continental Asian
Populations. Am J Phys
Anthropol 118:146–153.
31. Ji Y, Zhang AM,
Jia X, Zhang YP, Xiao X, Li S, Guo X,
Bandelt HJ, Zhang Q, Yao YG (2008)
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
83:760-768.
32. Cheng B, Tang W,
He L, Dong Y, Lu J, Lei Y, Yu H, Zhang
J, Xiao C (2008)
Genetic imprint of the Mongol: signal
from phylogeographic analysis of
mitochondrial DNA. J Hum
Genet 53:905–913.
33. Yao YG, Nie L,
Harpending H, Fu YX, Yuan ZG, Zhang YP
(2002)
Genetic relationship of Chinese ethnic
populations revealed by mtDNA sequence
diversity. Am J Phys
Anthropol 118:63-76.
34. Yao YG, Kong QP,
Man XY, Bandelt HJ, Zhang YP (2003)
Reconstructing the evolutionary history
of China: a caveat about inferences
drawn from ancient DNA. Mol
Biol Evol 20:214-219.
35. Derenko MV,
Grzybowski T, Malyarchuk BA, Dambueva
IK, Denisova GA, Czarny J, Dorzhu CM,
Kakpakov VT, Miścicka-Sliwka D, Woźniak
M, Zakharov IA (2003)
Diversity of mitochondrial DNA lineages
in South Siberia. Ann Hum
Genet 67:391-411.
36.林观得
(1982)
台湾海峡海底地貌的探讨.
台湾海峡
1(2):58-63.
37.
蔡保全
(2002)
晚玉木冰期台湾海峡成陆的证据.
海洋科学
26(6):51-54.
38. Tajima A, Hayami
M, Tokunaga K, Juji T, Matsuo M, Marzuki
S, Omoto K, Horai S (2004)
Genetic origins of the Ainu inferred
from combined DNA analyses of maternal
and paternal lineages. J Hum
Genet 49:187-193.
39. Horai S, Murayama
K, Hayasaka K, Matsubayashi S, Hattori
Y, Fucharoen G, Harihara S, Park KS,
Omoto K, Pan IH (1996)
mtDNA polymorphism in East Asian
Populations, with special reference to
the peopling of Japan. Am J
Hum Genet 59:579-590.
40. Forster P,
Harding R, Torroni A, Bandelt HJ (1996)
Origin and evolution of Native American
mtDNA variation: a reappraisal.
Am J Hum Genet 59:935-945.
41. Mishmar D, Ruiz-Pesini
E, Golik P, Macaulay V, Clark AG,
Hosseini S, Brandon M, Easley K, Chen E,
Brown MD, Sukernik RI, Olckers A,
Wallace DC (2003)
Natural selection shaped regional mtDNA
variation in humans. Proc
Natl Acad Sci USA 100:171-176.
42.
施雅风,崔之久,苏珍
(2006)中国第四纪冰川与环境变化.石家庄:河北科学技术出版社.
566-567,602-604.
43. Su B, Xiao J,
Underhill P, Deka R, Zhang W, Akey J,
Huang W, Shen D, Lu D, Luo J, Chu J, Tan
J, Shen P, Davis R, Cavalli-Sforza L,
Chakraborty R, Xiong M, Du R, Oefner P,
Chen Z, Jin L (1999)
Y-Chromosome evidence for a northward
migration of modern humans into Eastern
Asia during the last Ice Age.
Am J Hum Genet 65:1718-1724.
44. Xue Y, Zerjal T,
Bao W, Zhu S, Shu Q, Xu J, Du R, Fu S,
Li P, Hurles ME, Yang H, Tyler-Smith C
(2006)
Male
demography in East Asia: a north-south
contrast in human population expansion
times. Genetics
172:2431-2439.
45. Kayser M, Brauer
S, Cordaux R, Casto A, Lao O,
Zhivotovsky LA, Moyse-Faurie C, Rutledge
RB, Schiefenhoevel W, Gil D, Lin AA,
Underhill PA, Oefner PJ, Trent RJ,
Stoneking M (2006)
Melanesian and Asian origins of
Polynesians: mtDNA and Y chromosome
gradients across the Pacific.
Mol Biol Evol 23:2234-2244.
46.
文波,金力(2004)Y染色体､mtDNA多态性与东亚人群的遗传结构.
复旦大学2004年遗传学专业博士论文.
47. Li H, Huang Y,
Mustavich LF, Zhang F, Tan JZ, Wang LE,
Qian J, Gao MH, Jin L (2007)
Y
chromosomes of prehistoric people along
the Yangtze River. Hum Genet
122:383-388.
48.
高嵩,金力
(2004)
东亚人群线粒体遗传多态研究.
复旦大学人类生物学2004年毕业论文.
49. Lin SJ, Tanaka K,
Leonard W, Gerelsaikhan T, Dashnyam B,
Nyamkhishig S, Hida A, Nakahori Y, Omoto
K, Crawford MH, Nakagome Y (1994)
A
Y-associated allele is shared among a
few ethnic groups of Asia.
Jpn J Hum Genet 39:299-304.
50. Jin HJ, Kwak KD,
Hammer MF, Nakahori Y, Shinka T, Lee JW,
Jin F, Jia X, Tyler-Smith C, Kim W
(2003)
Y-chromosomal DNA haplogroups and their
implications for the dual origins of the
Koreans. Hum Genet 114:27-35.
51. Lu C, Zhang J, Li
Y, Xia Y, Zhang F, Wu B, Wu W, Ji G, Gu
A, Wang S, Jin L, Wang X (2007)
The
b2/b3 subdeletion shows higher risk of
spermatogenic failure and higher
frequency of complete AZFc deletion than
the gr/gr subdeletion in a Chinese
population. Hum Mol Genet
18:1122-1130.
52.
蔡保全
(1997)
“东山陆桥”与台湾最早人类.
漳州师院学报
(3):31-36.