Genetic diversity of two haploid markers in the Udegey population from Southeastern Siberia

American Journal of Physical Anthropology

Volumn 142, Issue 2, 2010, Pages 303-313

  Jin, Han Jun ^a,b   Kim, Ki Cheol ^a   Kim, Wook ^a  

^a Dankook University   (South Korea)

^b WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

Author keywords

Haplogroup; mtDNA; Siberians; Udegeys; Y chromosomal DNA

Indexed keywords

MITOCHONDRIAL DNA;

ARTICLE; GENETIC ANALYSIS; GENETIC DRIFT; GENETIC MARKER; GENETIC VARIABILITY; HAPLOIDY; HUMAN; MONGOLIA; RUSSIAN FEDERATION; Y CHROMOSOME;

ANALYSIS OF VARIANCE; ASIAN CONTINENTAL ANCESTRY GROUP; CHROMOSOMES, HUMAN, Y; DNA, MITOCHONDRIAL; EUROPEAN CONTINENTAL ANCESTRY GROUP; FEMALE; GENETIC DRIFT; GENETIC MARKERS; GENETIC VARIATION; HAPLOIDY; HUMANS; LOCUS CONTROL REGION; MALE; SEQUENCE ANALYSIS, DNA; SIBERIA;

EID: 77952777042     PISSN: 00029483     EISSN: 10968644     Source Type: Journal    
DOI: 10.1002/ajpa.21232     Document Type: Article

References (66)

1. Alexeev VP. 1989. Historical anthropology and ethnogenesis. Moscow: Nauka.
2. Alexeev VP, Gohman II. 1984. Anthropology of Asiatic part of USSR. Moscow: Nauka.
3. Andrews RM, Kubacka I, Chinnery PF, Lightowlers RN, Turnbull DM, Howell N. 1999. Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA. Nat Genet 23:147-148.
4. Bandelt HJ, Forster P, Rohl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol 16:37-48.
5. Bandelt HJ, Quintana-Murci L, Salas A, Macaulay V. 2002. The fingerprint of phantom mutations in mitochondrial DNA data. Am J Hum Genet 71:1150-1160.
6. Bergen AW, Wang CY, Tsai J, Jefferson K, Dey C, Smith KD, Park SC, Tsai SJ, Goldman D. 1999. An Asian-Native American paternal lineage identified by RPS4Y resequencing and by microsatellite haplotyping. Ann Hum Genet 63:63-80.
7. Bermisheva MA, Kutuev IA, Spitsyn VA, Villems R, Batyrova AZ, Korshunova TY, Khusnutdinova EK. 2005. Analysis of mitochondrial DNA variation in the population of Oroks. Genetika 41:66-71.
8. Brandstätter A, Klein R, Duftner N, Wiegand P, Parson W. 2006. Application of a quasi-median network analysis for the visualization of character conflicts to a population sample of mitochondrial DNA control region sequences from southern Germany (Ulm). Int J Legal Med 120:310-314.
9. Choi ML, Rhee SN. 2001. Korean archaeology for the 21st century: from prehistory to State formation. Seoul J Kor Studies 14:117-147.
10. Crawford MH, McComb J, Schanfield MS, Mitchell RJ. 2002. Genetic structure of pastoral populations of Siberia: the Evenki of central Siberia and the Kizhi of Gorno Altai. In: Leonard WR, Crawford MH, editors. Human biology of pastoral populations. New York: Cambridge University Press. p 10-49.
11. 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.
12. Derenko M, Malyarchuk B, Denisova GA, Wozniak M, Dambueva I, Dorzhu C, Luzina F, Miścicka-Ś liwka D, Zakharov I. 2006. Contrasting patterns of Y-chromosome variation in South Siberian populations from Baikal and Altai-Sayan regions. Hum Genet 118:591-604.
13. 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.
14. Derevianko AP. 1998. Human occupation of nearby regions and the role of population movements in the Paleolithic of Siberia. In: Derev'yanko AP, editor. The Paleolithic of Siberia: new discoveries and interpretations. Urbana: University of Illinois Press. p 336-351.
15. Excoffier L, Laval G, Schneider S. 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol Bioinform Online 1:47-50.
16. Excoffier L, Smouse PE, Quattro JM. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131:479-491.
17. Fedorova SA, Bermisheva MA, Villems R, Maksimova NR, Khusnutdinova EK. 2003. Analysis of mitochondrial DNA lineages in Yakuts. Mol Biol 37:544-553.
18. Hammer MF. 1994. A recent insertion of an Alu element on the Y chromosome is a useful marker for human population studies. Mol Biol Evol 11:749-761.
19. Hammer MF. 1995. A recent common ancestry for human Y chromosomes. Nature 378:376-378.
20. Hammer MF, Karafet TM, Redd AJ, Jarjanazi H, Santachiara-Benerecetti S, Soodyall H, Zegura SL. 2001. Hierarchical patterns of global human Y-chromosome diversity. Mol Biol Evol 18:1189-1203.
21. Hammer MF, Karafet TM, Park H, Omoto K, Harihara S, Stoneking M, Horai S. 2006. Dual origins of the Japanese: common ground for hunter-gatherer and farmer Y chromosomes. J Hum Genet 51:47-58.
22. Hammer MF, Spurdle AB, Karafet T, Bonner MR, Wood ET, Novelletto A, Malaspina P, Mitchell RJ, Horai S, Jenkins T, Zegura SL. 1997. The geographic distribution of human Y chromosome variation. Genetics 145:787-805.
23. Han KC. 2005. Parhae's succession to Koguryo based on inhabitants. In: Kim CB, editor. Parhae's Succession to Koguryo, Vol. 7. Seoul: The Koguryo Research Foundation Press. p 103-191.
24. Hong SB, Jin HJ, Kwak KD, Kim W. 2006. Y-chromosome haplogroup O3-M122 variation in East Asia and its implications for the peopling of Korea. Kor J Genet 28:1-8.
25. Jin HJ, Choi JW, Shin DJ. 1999. Distribution of length variation of the mtDNA 9-bp motif in the intergenic COII/ tRNALys region in East Asian populations. Kor J Biol Sci 3:393-397.
26. 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.
27. Jin HJ, Tyler-Smith C, Kim W. 2009. The peopling of Korea revealed by analyses of mitochondrial DNA and Y-chromosomal markers. PLoS ONE 4:e4210.
28. Jobling MA, Tyler-Smith C. 2003. The human Y chromosome: an evolutionary marker comes of age. Nat Rev Genet 4:598-612.
29. Jorde LB, Watkins WS, Bamshad MJ, Dixon ME, Ricker CE, Seielstad MT, Batzer MA. 2000. The distribution of human genetic diversity: a comparison of mitochondrial, autosomal, and Y-chromosome data. Am J Hum Genet 66:979-988.
30. Karafet T, Xu L, Du R, Wang W, Feng S, Wells RS, Redd AJ, Zegura SL, Hammer MF. 2001. Paternal population history of East Asia: sources, patterns, and microevolutionary processes. Am J Hum Genet 69:615-628.
31. Kayser M, Krawczak M, Excoffier L, Dieltjes P, Corach D, Pascali V, Gehrig C, Bernini LF, Jespersen J, Bakker E, Roewer L, de Knijff P. 2001. An extensive analysis of Y-chromosomal microsatellite haplotypes in globally dispersed human populations. Am J Hum Genet 68:990-1018.
32. Kim K. 1970. Korea - its people and cultures. Seoul: Hakwon-sa Ltd.
33. Kivisild T, Tolk HV, Parik J, Wang Y, Papiha SS, Bandelt HJ, Villems R. 2002. The emerging limbs and twigs of the East Asian mtDNA tree. Mol Biol Evol 19:1737-1751.
34. 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.
35. Krauss ME. 1988. Many tongues-ancient tales. Peoples of the Amur and maritime regions. In: Fitzhugh WW, Crowell A, editors. Crossroads of continents: cultures of Siberia and Alaska. Washington, DC: Smithsonian Institution Press. p 145-150.
36. Kutach LS, Bolshakov S, Ananthaswamy HN. 1999. Detection of mutations and polymorphisms in the p53 tumor suppressor gene by single-strand conformation polymorphism analysis. Electrophoresis 20:1204-1210.
37. Levin MG, Potapov LP. 1964. The peoples of Siberia. Chicago and London: The University of Chicago Press.
38. Malyarchuk B, Derenko M, Grzybowski T, Lunkina A, Czarny J, Rychkov S, Morozova I, Denisova G, Miścicka-Sliwka D. 2004. Differentiation of mitochondrial DNA and Y chromosomes in Russian populations. Hum Biol 76:877-900.
39. Maruyama S, Minaguchi K, Saitou N. 2003. Sequence polymorphisms of the mitochondrial DNA control region and phylogenetic analysis of mtDNA lineages in the Japanese population. Int J Legal Med 117:218-225.
40. Nasidze I, Quinque D, Dupanloup I, Cordaux R, Kokshunova L, Stoneking M. 2005. Genetic evidence for the Mongolian ancestry of Kalmyks. Am J Phys Anthropol 128:846-854.
41. Pakendorf B, Wiebe V, Tarskaia LA, Spitsyn VA, Soodyall H, Rodewald A, Stoneking M. 2003. Mitochondrial DNA evidence for admixed origins of central Siberian populations. Am J Phys Anthropol 120:211-224.
42. Petrova T. 1967. Language of Oroks (Ul'ta). Moscow: Nauka.
43. Poetsch M, Wittig H, Krause D, Lignitz E. 2003. The impact of mtDNA analysis between positions nt8306 and nt9021 for forensic casework. Mitochondrion 3:133-137.
44. Puzyrev VP, Stepanov VA, Golubenko MV, Puzyrev KV, Maksimova NR, Khar'kov VN, Spiridonova MG, Nogovitsyna AN. 2003. MtDNA and Y-chromosome lineages in the Yakut population. Russian Genetics 39:816-822.
45. Rabilloud T, Carpentier G, Tarroux P. 1988. Improvement and simplification of low-background silver staining of proteins by using sodium dithionite. Electrophoresis 9:288-291.
46. Richards B, Skoletsky J, Shuber AP, Balfour R, Stern RC, Dorkin HL, Parad RB, Witt D, Klinger KW. 1993. Multiplex PCR amplification from the CFTR gene using DNA prepared from buccal brushes/swabs. Hum Mol Genet 2:159-163.
47. Santos FR, Pandya A, Kayser M, Mitchell RJ, Liu A, Singh L, Destro-Bisol G, Novelletto A, Qamar R, Mehdi SQ, Adhikari R, de Knijff P, Tyler-Smith C. 2000. A polymorphic L1 retroposon insertion in the centromere of the human Y chromosome. Hum Mol Genet 9:421-430.
48. Schurr TG, Sukernik RI, Starikovskaya YB, Wallace DC. 1999. Mitochondrial DNA variation in Koryaks and Itel'men: population replacement in the Okhotsk Sea-Bering Sea region during the Neolithic. Am J Phys Anthropol 108:1-39.
49. Semino O, Passarino G, Oefner PJ, Lin AA, Arbuzova S, Beckman LE, De Benedictis G, Francalacci P, Kouvatsi A, Limborska S, Marcikiae M, Mika A, Mika B, Primorac D, Santachiara- Benerecetti AS, Cavalli-Sforza LL, Underhill PA. 2000. The genetic legacy of Paleolithic Homo sapiens sapiens in extant Europeans: a Y chromosome perspective. Science 290:1155-1159.
50. Shinka T, Tomita K, Toda T, Kotliarova SE, Lee J, Kuroki Y, Jin DK, Tokunaga K, Nakamura H, Nakahori Y. 1999. Genetic variations on the Y chromosome in the Japanese population and implications for modern human Y chromosome lineage. J Hum Genet 44:240-245.
51. Smolyak AK. 1975. Ethnic processes in the populations of lower Amur Region and Sakhalin. Moscow: Nauka.
52. Starikovskaya EB, Sukernik RI, Derbeneva OA, Volodko NV, Ruiz-Pesini E, Torroni A, Brown MD, Lott MT, Hosseini SH, Huoponen K, Wallace DC. 2005. 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.
53. Starikovskaya YB, Sukernik RI, Schurr TG, Kogelnik AM, Wallace DC. 1998. mtDNA diversity in Chukchi and Siberian Eskimos: implications for the genetic history of Ancient Beringia and the peopling of the New World. Am J Hum Genet 63:1473-1491.
54. Tajima A, Pan IH, Fucharoen G, Fucharoen S, Matsuo M, Tokunaga K, Juji T, Hayami M, Omoto K, Horai S. 2002. Three major lineages of Asian Y chromosomes: implications for the peopling of east and southeast Asia. Hum Genet 110:80-88.
55. 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.
56. Torroni A, Achilli A, Macaulay V, Richards M, Bandelt HJ. 2006. Harvesting the fruit of the human mtDNA tree. Trends Genet 22:339-345.
57. Underhill PA, Jin L, Lin AA, Mehdi SQ, Jenkins T, Vollrath D, Davis RW, Cavalli-Sforza LL, Oefner PJ. 1997. Detection of numerous Y chromosome biallelic polymorphisms by denaturing high-performance liquid chromatography. Genome Res 7:996-1005.
58. Underhill PA, Passarino G, Lin AA, Shen P, Mirazón Lahr M, Foley RA, Oefner PJ, Cavalli-Sforza LL. 2001. The phylogeography of Y chromosome binary haplotypes and the origins of modern human populations. Ann Hum Genet 65:43-62.
59. Vasiliev SA. 1993. The Upper Palaeolithic of Northern Asia. Curr Anthropol 34:82-92.
60. Wallace DC. 1995. Mitochondrial DNA variation in human evolution, degenerative disease, and aging. Am J Hum Genet 57:201-223.
61. Wallace DC, Brown MD, Lott MT. 1999. Mitochondrial DNA variation in human evolution and disease. Gene 238:211-230.
62. Wise CA, Sullivan SG, Black ML, Erber WN, Bittles AH. 2005. Y-chromosome and mitochondrial DNA studies on the population structure of the Christmas Island community. Am J Phys Anthropol 128:670-677.
63. Y Chromosome Consortium (YCC). 2002. A nomenclature system for the tree of human Y-chromosomal binary haplogroups. Genome Res 12:339-348.
64. 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.
65. 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.
66. Zerjal T, Xue Y, Bertorelle G, Wells RS, Bao W, Zhu S, Qamar R, Ayub Q, Mohyuddin A, Fu S, Li P, Yuldasheva N, Ruzibakiev R, Xu J, Shu Q, Du R, Yang H, Hurles ME, Robinson E, Gerelsaikhan T, Dashnyam B, Mehdi SQ, Tyler-Smith C. 2003. The genetic legacy of the Mongols. Am J Hum Genet 72:717-721.