Genomic study of the Ket: a Paleo-Eskimo-related ethnic group with significant ancient North Eurasian ancestry
Jazyk angličtina Země Anglie, Velká Británie Médium electronic
Typ dokumentu časopisecké články, Research Support, N.I.H., Extramural, práce podpořená grantem
Grantová podpora
R01 GM068968
NIGMS NIH HHS - United States
R01 HD070996
NICHD NIH HHS - United States
GM068968
NIGMS NIH HHS - United States
HD070996
NICHD NIH HHS - United States
PubMed
26865217
PubMed Central
PMC4750364
DOI
10.1038/srep20768
PII: srep20768
Knihovny.cz E-zdroje
- MeSH
- etnicita genetika MeSH
- fylogeneze * MeSH
- fylogeografie MeSH
- genetická variace MeSH
- genom lidský * MeSH
- haplotypy MeSH
- Inuité genetika MeSH
- jazyk (prostředek komunikace) MeSH
- jednonukleotidový polymorfismus * MeSH
- lidé MeSH
- lidský chromozom Y MeSH
- migrace lidstva MeSH
- mitochondriální DNA genetika MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Research Support, N.I.H., Extramural MeSH
- Geografické názvy
- Sibiř MeSH
- Názvy látek
- mitochondriální DNA MeSH
The Kets, an ethnic group in the Yenisei River basin, Russia, are considered the last nomadic hunter-gatherers of Siberia, and Ket language has no transparent affiliation with any language family. We investigated connections between the Kets and Siberian and North American populations, with emphasis on the Mal'ta and Paleo-Eskimo ancient genomes, using original data from 46 unrelated samples of Kets and 42 samples of their neighboring ethnic groups (Uralic-speaking Nganasans, Enets, and Selkups). We genotyped over 130,000 autosomal SNPs, identified mitochondrial and Y-chromosomal haplogroups, and performed high-coverage genome sequencing of two Ket individuals. We established that Nganasans, Kets, Selkups, and Yukaghirs form a cluster of populations most closely related to Paleo-Eskimos in Siberia (not considering indigenous populations of Chukotka and Kamchatka). Kets are closely related to modern Selkups and to some Bronze and Iron Age populations of the Altai region, with all these groups sharing a high degree of Mal'ta ancestry. Implications of these findings for the linguistic hypothesis uniting Ket and Na-Dene languages into a language macrofamily are discussed.
Belozersky Institute of Physico Chemical Biology Lomonosov Moscow State University Moscow Russia
Biomedical Cluster Skolkovo Foundation Skolkovo Russia
Children's Hospital Los Angeles Los Angeles CA USA
Department of Biology and Ecology Faculty of Science University of Ostrava Ostrava Czech Republic
Faculty of Bioengineering and Bioinformatics Lomonosov Moscow State University Moscow Russia
George Mason University Fairfax VA USA
Institute of Parasitology Biology Centre Czech Academy of Sciences České Budĕjovice Czech Republic
Instituto de Ciências Biomédicas da Universidade do Porto Porto Portugal
Instituto de Patologia e Imunologia Molecular da Universidade do Porto Porto Portugal
Pirogov Russian National Research Medical University Moscow Russia
Russian Presidential Academy Moscow Russia
Russian State University for the Humanities Moscow Russia
Skolkovo Institute of Science and Technology Skolkovo Russia
Spatial Sciences Institute University of Southern California Los Angeles CA USA
Zobrazit více v PubMed
Vajda E. J. Ket. Languages of the World/Materials Volume 204. Munich: Lincom Europa (2004).
Vajda E. J. Loanwords in Ket. The Typology of Loanwords, ed. Haspelmath, M., Tadmoor, U. Oxford: Oxford University Press, 125–139 (2009).
Vajda E. J. Yeniseian Peoples and Languages: a History of Their Study with an Annotated Bibliography and a Source Guide. Surrey, England: Curzon Press, 389 p. (2001).
Dul’zon A. P. Ketskie toponimy Zapadnoy Sibiri [Ket toponyms of Western Siberia]. Uchenye Zapisky Tomskogo Gosudarstvennogo Pedagogicheskogo Instituta [Scholarly Proceedings of Tomsk State Pedagogical Institute] 18, 91–111 (1959).
Chlenova N. L. Sootnoshenie kul’tur karasukskogo tipa i ketskikh toponimov na territorii Sibiri [The correlation between Karasuk-type cultures and Ket toponyms in Siberia]. Etnogenez i Etnicheskaya Istoriya Narodov Severa [Ethnogenesis and History of the Peoples of the North]. Moscow: Nauka, 223–230 (1975).
Allentoft M. E. et al.. Population genomics of Bronze Age Eurasia. Nature 522, 167–172 (2015). PubMed
Alekseenko E. A. Kety: Etnograficheskie Ocherki [The Ket: Ethnographic Studies]. Leningrad: Nauka (1967).
Krivonogov V. P. Kety: Desyat’ Let Spustya [The Ket: Ten Years Later]. Krasnoyarsk: RIO KGPU (2003).
Vajda E. J. Siberian landscapes in Ket traditional culture. Landscape and Culture in Northern Eurasia, ed. Jordan, P. Walnut Creek, CA: Left Coast Press, 297–304 (2011).
Vajda E. J. Siberian link with Na-Dene languages. The Dene-Yeniseian Connection, ed. Kari, J., Potter, B. A. Anthropological Papers of the University of Alaska: New Series 5, 33–99 (2010).
Comrie B. The Dene-Yeniseian hypothesis: an introduction. The Dene-Yeniseian Connection, ed. Kari, J., Potter, B. A. Anthropological Papers of the University of Alaska: New Series 5, 25–32 (2010).
Ruhlen M. The origin of the Na-Dene. Proc. Natl. Acad. Sci. USA 95, 13994–13996 (1998). PubMed PMC
Potter B. A. Archaeological patterning in Northeast Asia and Northwest North America: an examination of the Dene-Yeniseian hypothesis. The Dene-Yeniseian Connection, ed. Kari, J., Potter, B. A. Anthropological Papers of the University of Alaska: New Series 5, 138–167 (2010).
Scott R. G. & O’Rourke D. Genes across Beringia: a physical anthropological perspective on the Dene-Yeniseian hypothesis. The Dene-Yeniseian Connection, ed. Kari, J., Potter, B. A. Anthropological Papers of the University of Alaska: New Series 5, 119–137 (2010).
Ives J. W. Dene-Yeniseian, migration and prehistory. The Dene-Yeniseian Connection, ed. Kari, J., Potter, B. A. Anthropological Papers of the University of Alaska: New Series 5, 324–334 (2010).
Rasmussen M. et al.. Ancient human genome sequence of an extinct Palaeo-Eskimo. Nature 463, 757–762 (2010). PubMed PMC
Fedorova S. a. et al.. Autosomal and uniparental portraits of the native populations of Sakha (Yakutia): implications for the peopling of Northeast Eurasia. BMC Evol. Biol. 13, 127 (2013). PubMed PMC
Yunusbayev B. et al.. The genetic legacy of the expansion of Turkic-speaking nomads across Eurasia. PLoS Genet. 11, e1005068 (2015). PubMed PMC
Raghavan M. et al.. Genomic evidence for the Pleistocene and recent population history of Native Americans Science 349, 1–20 (2015). PubMed PMC
Elhaik E. et al.. The GenoChip: a new tool for genetic anthropology. Genome Biol. Evol. 5, 1021–1031 (2013). PubMed PMC
Raghavan M. et al.. Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans. Nature 505, 87–91 (2014). PubMed PMC
Lazaridis I. et al.. Ancient human genomes suggest three ancestral populations for present-day Europeans. Nature 513, 409–413 (2014). PubMed PMC
Haak W. et al.. Massive migration from the steppe was a source for Indo-European languages in Europe. Nature 522, 207–211 (2015). PubMed PMC
Mathieson I. et al.. Genome-wide patterns of selection in 230 ancient Eurasians. Nature 528, 499-503 (2015). PubMed PMC
Raghavan M. et al.. The genetic prehistory of the New World Arctic. Science 345, 1255832 (2014). PubMed
Seguin-Orlando A. et al.. Genomic structure in Europeans dating back at least 36,200 years. Science 346, 1113–1118 (2014). PubMed
McGhee R. Ancient People of the Arctic. Vancouver: UBC Press (1996).
Reich D. et al.. Reconstructing Native American population history. Nature 488, 370–374 (2012). PubMed PMC
Tamm E. et al.. Beringian standstill and spread of Native American founders. PLoS One 2, e829 (2007). PubMed PMC
Gilbert M. T. P. et al.. Paleo-Eskimo mtDNA genome reveals matrilineal discontinuity in Greenland. Science 320, 1787–1789 (2008). PubMed
Hayes M. G., Coltrain J. B. & O’Rourke D. H. Molecular archaeology of the Dorset, Thule, and Sadlermiut: ancestor-descendent relationships in eastern North American arctic prehistory. The Dorset Culture: 75 Years after Jennes, ed. Sutherland, P. Hull: Canadian Museum of Civilization (2002).
Malhi R. S. et al.. Native American mtDNA prehistory in the American Southwest. Am. J. Phys. Anthropol. 120, 108–124 (2003). PubMed
Sicoli M. A. & Holton G. Linguistic phylogenies support back-migration from Beringia to Asia. PLoS One 9, e91722 (2014). PubMed PMC
Pringle H. Welcome to Beringia. Science 343, 961–963 (2014). PubMed
Elhaik E. et al.. Geographic population structure analysis of worldwide human populations infers their biogeographical origins. Nat. Commun. 5, 3513 (2014). PubMed PMC
Kozlov K. et al.. Differential Evolution approach to detect recent admixture. BMC Genomics 16 Suppl 8, S9 (2015). PubMed PMC
Alexander D. H., Novembre J. & Lange K. Fast model-based estimation of ancestry in unrelated individuals. Genome Res. 19, 1655–1664 (2009). PubMed PMC
Patterson N. et al.. Ancient admixture in human history. Genetics 192, 1065–1093 (2012). PubMed PMC
Pickrell J. K. & Pritchard J. K. Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data. PLoS Genet. 8, e1002967 (2012). PubMed PMC
Dürr M. & Renner E. The history of the Na-Dene controversy: a sketch. Language and Culture in Native North America – Studies in Honor of Heinz-Jürgen Pinnow, ed. Dürr, M., Renner, E., Oleschinski, W. München and Newcastle: Lincom, 3–18 (1995).
Quinque D., Kittler R., Kayser M., Stoneking M. & Nasidze I. Evaluation of saliva as a source of human DNA for population and association studies. Anal. Biochem. 353, 272–277 (2006). PubMed
Abecasis G. R. et al.. An integrated map of genetic variation from 1,092 human genomes. Nature 491, 56–65 (2012). PubMed PMC
Purcell S. et al.. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 81, 559–575 (2007). PubMed PMC
Behar D. M. et al.. The genome-wide structure of the Jewish people. Nature 466, 238–242 (2010). PubMed
Cardona A. et al.. Genome-wide analysis of cold adaptation in indigenous Siberian populations. PLoS One 9, e98076 (2014). PubMed PMC
Li J. Z. et al.. Worldwide human relationships inferred from genome-wide patterns of variation. Science 319, 1100–1104 (2008). PubMed
Kidd J. R. et al.. Single nucleotide polymorphisms and haplotypes in Native American populations. Am. J. Phys. Anthropol. 146, 495–502 (2011). PubMed PMC
Silva-Zolezzi I. et al.. Analysis of genomic diversity in Mexican Mestizo populations to develop genomic medicine in Mexico. Proc. Natl. Acad. Sci. 106, 8611–8616 (2009). PubMed PMC
Surakka I. et al.. Founder population-specific HapMap panel increases power in GWA studies through improved imputation accuracy and CNV tagging. Genome Res. 20, 1344–1351 (2010). PubMed PMC
Yunusbayev B. et al.. The Caucasus as an Asymmetric Semipermeable Barrier to Ancient Human Migrations. Mol. Biol. Evol. 29, 359–365 (2011). PubMed
Olalde I. et al.. Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European. Nature 507, 225–228 (2014). PubMed PMC
Rasmussen M. et al.. The genome of a Late Pleistocene human from a Clovis burial site in western Montana. Nature 506, 225–229 (2014). PubMed PMC
Altshuler D. M. et al.. Integrating common and rare genetic variation in diverse human populations. Nature 467, 52–58 (2010). PubMed PMC
Behar D. M. et al.. No Evidence from Genome-Wide Data of a Khazar Origin for the Ashkenazi Jews. Hum. Biol. 85, 859–900 (2013). PubMed
Verdu P. et al.. Patterns of Admixture and Population Structure in Native Populations of Northwest North America. PLoS Genet. 10, e1004530 (2014). PubMed PMC
Korneliussen T. S., Albrechtsen A. & Nielsen R. ANGSD: Analysis of Next Generation Sequencing Data. BMC Bioinformatics 15, 356 (2014). PubMed PMC
Rasmussen M. et al.. An Aboriginal Australian genome reveals separate human dispersals into Asia. Science 334, 94–98 (2011). PubMed PMC
Meyer M. et al.. A high-coverage genome sequence from an archaic Denisovan individual. Science 338, 222–226 (2012). PubMed PMC
Prüfer K. et al.. The complete genome sequence of a Neanderthal from the Altai Mountains. Nature 505, 43–49 (2014). PubMed PMC
Axelsson E., Willerslev E., Gilbert M. T. P. & Nielsen R. The Effect of Ancient DNA Damage on Inferences of Demographic Histories. Mol. Biol. Evol. 25, 2181–2187 (2008). PubMed
Patterson N., Price A. L. & Reich D. Population structure and eigenanalysis. PLoS Genet. 2, e190 (2006). PubMed PMC
Ancient DNA reveals the prehistory of the Uralic and Yeniseian peoples
Indian genetic heritage in Southeast Asian populations
The genetic history of admixture across inner Eurasia
Palaeo-Eskimo genetic ancestry and the peopling of Chukotka and North America
Dispersals of the Siberian Y-chromosome haplogroup Q in Eurasia
Toward high-resolution population genomics using archaeological samples