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

BackgroundArchaeological studies have revealed a series of cultural changes around the Last Glacial Maximum in East Asia; whether these changes left any signatures in the gene pool of East Asians remains poorly indicated. To achieve deeper insights into the demographic history of modern humans in East Asia around the Last Glacial Maximum, we extensively analyzed mitochondrial DNA haplogroup M9a'b, a specific haplogroup that was suggested to have some potential for tracing the migration around the Last Glacial Maximum in East Eurasia.ResultsA total of 837 M9a'b mitochondrial DNAs (583 from the literature, while the remaining 254 were newly collected in this study) pinpointed from over 28,000 subjects residing across East Eurasia were studied here. Fifty-nine representative samples were further selected for total mitochondrial DNA sequencing so we could better understand the phylogeny within M9a'b. Based on the updated phylogeny, an extensive phylogeographic analysis was carried out to reveal the differentiation of haplogroup M9a'b and to reconstruct the dispersal histories.ConclusionsOur results indicated that southern China and/or Southeast Asia likely served as the source of some post-Last Glacial Maximum dispersal(s). The detailed dissection of haplogroup M9a'b revealed the existence of an inland dispersal in mainland East Asia during the post-glacial period. It was this dispersal that expanded not only to western China but also to northeast India and the south Himalaya region. A similar phylogeographic distribution pattern was also observed for haplogroup F1c, thus substantiating our proposition. This inland post-glacial dispersal was in agreement with the spread of the Mesolithic culture originating in South China and northern Vietnam.

[1]  Fahu Chen,et al.  Late Quaternary climate change and human adaptation in arid China , 2007 .

[2]  Noriyuki Fuku,et al.  Distilling Artificial Recombinants from Large Sets of Complete mtDNA Genomes , 2008, PloS one.

[3]  Hui Li,et al.  A mitochondrial revelation of early human migrations to the Tibetan Plateau before and after the last glacial maximum. , 2010, American journal of physical anthropology.

[4]  M. Cox Accuracy of Molecular Dating with the Rho Statistic: Deviations from Coalescent Expectations Under a Range of Demographic Models , 2008, Human biology.

[5]  V. T. Hà The Hoabinhian and before , 1997 .

[6]  R. Cann The history and geography of human genes , 1995, The Journal of Asian Studies.

[7]  R. J. Herrera,et al.  The Himalayas as a directional barrier to gene flow. , 2007, American journal of human genetics.

[8]  P. Brantingham,et al.  Late Pleistocene climate change and Paleolithic cultural evolution in northern China: Implications from the Last Glacial Maximum , 2007 .

[9]  Q. Kong,et al.  Different matrilineal contributions to genetic structure of ethnic groups in the silk road region in china. , 2004, Molecular biology and evolution.

[10]  Xing Gao,et al.  Analysis of sedimentary-geomorphologic variation and the living environment of hominids at the Shuidonggou Paleolithic site , 2008 .

[11]  P. Forster,et al.  Climate change and postglacial human dispersals in southeast Asia. , 2008, Molecular biology and evolution.

[12]  BMC Biology , 2004 .

[13]  Kexin Liu,et al.  Radiocarbon dating of charcoal and bone collagen associated with early pottery at Yuchanyan Cave, Hunan Province, China , 2009, Proceedings of the National Academy of Sciences.

[14]  W. Parson,et al.  Consistent treatment of length variants in the human mtDNA control region: a reappraisal , 2006, International Journal of Legal Medicine.

[15]  Q. Kong,et al.  Strikingly different penetrance of LHON in two Chinese families with primary mutation G11778A is independent of mtDNA haplogroup background and secondary mutation G13708A. , 2008, Mutation research.

[16]  T. Goebel The “Microblade Adaptation” and Recolonization of Siberia during the Late Upper Pleistocene , 2008 .

[17]  L. Moore,et al.  Mitochondrial DNA analysis in Tibet: implications for the origin of the Tibetan population and its adaptation to high altitude. , 1994, American journal of physical anthropology.

[18]  Yong-Gang Yao,et al.  MitoTool: a web server for the analysis and retrieval of human mitochondrial DNA sequence variations. , 2011, Mitochondrion.

[19]  D. F. Roberts,et al.  The History and Geography of Human Genes , 1996 .

[20]  V. Rao,et al.  The earliest settlers' antiquity and evolutionary history of Indian populations: evidence from M2 mtDNA lineage , 2008, BMC Evolutionary Biology.

[21]  F. Balloux,et al.  Climate shaped the worldwide distribution of human mitochondrial DNA sequence variation , 2009, Proceedings of the Royal Society B: Biological Sciences.

[22]  G. Driem TIBETO-BURMAN vs INDO-CHINESE: Implications for population geneticists, archaeologists and prehistorians , 2005 .

[23]  Hans-Jürgen Bandelt,et al.  The emerging limbs and twigs of the East Asian mtDNA tree. , 2002, Molecular biology and evolution.

[24]  Chester F. Gorman The Hoabinhian and after: Subsistence patterns in Southeast Asia during the late Pleistocene and early recent periods , 1971 .

[25]  Maido Remm,et al.  Population genetic structure in Indian Austroasiatic speakers: the role of landscape barriers and sex-specific admixture. , 2011, Molecular biology and evolution.

[26]  A. Torroni,et al.  Southeast Asian mitochondrial DNA analysis reveals genetic continuity of ancient mongoloid migrations. , 1992, Genetics.

[27]  Hans-Jürgen Bandelt,et al.  mtDNA data mining in GenBank needs surveying. , 2009, American journal of human genetics.

[28]  Peter A Underhill,et al.  Use of y chromosome and mitochondrial DNA population structure in tracing human migrations. , 2007, Annual review of genetics.

[29]  Ricardo Rocha,et al.  The diversity present in 5140 human mitochondrial genomes. , 2009, American journal of human genetics.

[30]  P. Underhill,et al.  Y chromosome haplotypes reveal prehistorical migrations to the Himalayas , 2009, Human Genetics.

[31]  C. Stringer,et al.  Evaluating the mitochondrial timescale of human evolution. , 2009, Trends in ecology & evolution.

[32]  Arne Röhl,et al.  Correcting for purifying selection: an improved human mitochondrial molecular clock. , 2009, American journal of human genetics.

[33]  Hidetoshi Shimodaira,et al.  Mitochondrial genome variation in eastern Asia and the peopling of Japan. , 2004, Genome research.

[34]  M. Zeviani,et al.  The molecular dissection of mtDNA haplogroup H confirms that the Franco-Cantabrian glacial refuge was a major source for the European gene pool. , 2004, American journal of human genetics.

[35]  D. Turnbull,et al.  Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA , 1999, Nature Genetics.

[36]  S. Oppenheimer,et al.  Phylogeography and ethnogenesis of aboriginal Southeast Asians. , 2006, Molecular biology and evolution.

[37]  L. Singh,et al.  Austro-Asiatic Tribes of Northeast India Provide Hitherto Missing Genetic Link between South and Southeast Asia , 2007, PloS one.

[38]  H. Bandelt,et al.  Origin and evolution of Native American mtDNA variation: a reappraisal. , 1996, American journal of human genetics.

[39]  H. Bandelt,et al.  The Archaeogenetics of Europe , 2010, Current Biology.

[40]  Q. Kong,et al.  Mitochondrial genome evidence reveals successful Late Paleolithic settlement on the Tibetan Plateau , 2009, Proceedings of the National Academy of Sciences.

[41]  Peter J. Bradbury,et al.  The Last Glacial Maximum , 2009, Science.

[42]  R. Villems,et al.  Explaining the Imperfection of the Molecular Clock of Hominid Mitochondria , 2009, PloS one.

[43]  H. Bandelt,et al.  Median-joining networks for inferring intraspecific phylogenies. , 1999, Molecular biology and evolution.

[44]  L. Zöller Chronology of upper Pleistocene “red silts” in the Siwalik system and constraints for the timing of the upper palaeolithic in Nepal , 2000 .

[45]  Manfred Kayser,et al.  Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation , 2009, Human mutation.

[46]  T. Kivisild,et al.  Phylogeographic differentiation of mitochondrial DNA in Han Chinese. , 2002, American journal of human genetics.

[47]  H. Bandelt,et al.  mtDNA variation among Greenland Eskimos: the edge of the Beringian expansion. , 2000, American journal of human genetics.

[48]  Q. Kong,et al.  Updating the East Asian mtDNA phylogeny: a prerequisite for the identification of pathogenic mutations. , 2006, Human molecular genetics.

[49]  Kwang-Chih Chang,et al.  The Formation of Chinese Civilization: An Archaeological Perspective , 2002 .

[50]  Sean S. Downey,et al.  Major east-west division underlies Y chromosome stratification across Indonesia. , 2010, Molecular biology and evolution.

[51]  Shuhua Xu,et al.  A spatial analysis of genetic structure of human populations in China reveals distinct difference between maternal and paternal lineages , 2008, European Journal of Human Genetics.

[52]  A. Torroni,et al.  Mitochondrial and Y-chromosome diversity of the Tharus (Nepal): a reservoir of genetic variation , 2009, BMC Evolutionary Biology.

[53]  Pulamaghatta N. Venugopal,et al.  Updating Phylogeny of Mitochondrial DNA Macrohaplogroup M in India: Dispersal of Modern Human in South Asian Corridor , 2009, PloS one.

[54]  W. Parson,et al.  Sequencing strategy for the whole mitochondrial genome resulting in high quality sequences , 2009, BMC Genomics.

[55]  T. Subba,et al.  The Anthropology of North-East India , 2003 .

[56]  P. Forster Ice Ages and the mitochondrial DNA chronology of human dispersals: a review. , 2004, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.

[57]  V. Černý,et al.  Internal diversification of mitochondrial haplogroup R0a reveals post-last glacial maximum demographic expansions in South Arabia. , 2011, Molecular biology and evolution.

[58]  H. Bandelt,et al.  Mitochondrial DNA haplogroups M7b1'2 and M8a affect clinical expression of leber hereditary optic neuropathy in Chinese families with the m.11778G-->a mutation. , 2008, American journal of human genetics.

[59]  Laurent Sagart,et al.  The peopling of East Asia : putting together archaeology, linguistics and genetics , 2005 .

[60]  G. Corvinus The prehistory of Nepal after 10 years of research , 1996 .