Coalescent simulations of Yakut mtDNA variation suggest small founding population

American Journal of Physical Anthropology

Volumn 139, Issue 4, 2009, Pages 474-482

  Zlojutro, Mark ^a   Tarskaia, Larissa A ^b   Sorensen, Mark ^c   Snodgrass, J Josh ^d   Leonard, William R ^e   Crawford, Michael H ^f  

^a SOUTHWEST FOUNDATION FOR BIOMEDICAL RESEARCH   (United States)

^b INSTITUTE OF MOLECULAR GENETICS   (Russian Federation)

^c The University of North Carolina at Chapel Hill   (United States)

^d UNIVERSITY OF OREGON   (United States)

^e NORTHWESTERN UNIVERSITY   (United States)

^f UNIVERSITY OF KANSAS   (United States)

Author keywords

Coalescent simulation; Mitochondrial DNA; Yakut origins

Indexed keywords

MITOCHONDRIAL DNA;

ARCHEOLOGY; ARTICLE; DEMOGRAPHY; GENE FLOW; GENETIC VARIABILITY; HUMAN; POPULATION SIZE; RUSSIAN FEDERATION; SIMULATION; Y CHROMOSOME;

BASE SEQUENCE; COMPUTER SIMULATION; DNA, MITOCHONDRIAL; ETHNIC GROUPS; FOUNDER EFFECT; GENE FLOW; GENETIC VARIATION; HUMANS; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; POPULATION DENSITY; SEQUENCE ANALYSIS, DNA; SIBERIA;

EID: 67650547458     PISSN: 00029483     EISSN: 10968644     Source Type: Journal    
DOI: 10.1002/ajpa.21003     Document Type: Article

References (40)

1. Alekseev AN. 1996. Ancient Yakutia: The Iron Age and the Medieval Epoch (in Russian). Novosibirsk: Izdatel'stvo Instituta Arkheologii i Etnografii.
2. Anderson CNK, Ramakrishnan U, Chan YL, Hadley EA. 2005. Serial Simcoal: a population genetics model for data from multiple populations and points in time. Bioinformatics 21:1733-1734. (Pubitemid 40542747)
3. Belle EMS, Ramakrishnan U, Mountain JL, Barbujani G. 2006. Serial coalescent simulations suggest a weak genealogical relationship between Etruscans and modern Tuscans. Proc Natl Acad Sci USA 103:8012-8017. (Pubitemid 43801044)
4. Comrie B. 1981. The languages of the Soviet Union. Cambridge: Cambridge University Press.
5. Dolgikh BO. 1960. The tribal composition of the peoples of Siberia in the 17th century (in Russian). Moscow: Izdatel'stvo Akademii Nauk SSSR.
6. Ewens WJ. 1972. The sampling theory of selectively neutral alleles. Theor Pop Biol 3:87-112.
7. Federova SA, Bermisheva MA, Villems R, Maksimova NR, Khusnutdinova EK. 2003. Analysis of mitochondrial DNA lineages in Yakuts. Mol Biol 37:544-553. (Pubitemid 36982450)
8. Forsyth J. 1992. A history of the peoples of Siberia. Cambridge: Cambridge University Press.
9. Goebel T. 1999. Pleistocene human colonization of Siberia and peopling of the Americas: An ecological approach. Evol Anthropol 8:208-227. (Pubitemid 129335228)
10. Gogolev AI. 1993. The Yakuts. Problems of their ethnogenesis and formation of their culture (in Russian). Yakutsk: Izdatel'stvo JaGU.
11. Hagelberg E. 2003. Recombination or mutation rate heterogeneity? Implications for mitochondrial Eve. Trends Genet 19:84-90. (Pubitemid 36120665)
12. Hasegawa M, Di Rienzo A, Kocher TD, Wilson AC. 1993. Toward a more accurate time scale for the human mitochondrial DNA tree. J Mol Evol 37:347-354. (Pubitemid 23283721)
13. Heyer E, Zietkiewicz E, Rochowski A, Yotova V, Puymirat J, Labuda D. 2001. Phylogenetic and familial estimates of mitochondrial substitution rates: Study of control region mutations in deep-rooting pedigrees. Am J Hum Genet 69:1113-1126. (Pubitemid 33015825)
14. Ho SYW, Larson G. 2006. Molecular clocks: When times are achangin'. Trends Genet 22:79-83. (Pubitemid 43152025)
15. Howell C, Smejkal CB, Mackey DA, Chinnery PF, Turnbull DM, Hernstadt C. 2003. The pedigree rate of sequence divergence in the human mitochondrial genome: There is a difference between phylogenetic and pedigree rates. Am J Hum Genet 72:659-670. (Pubitemid 36255964)
16. Janhunen J. 1996. Manchuria. An ethnic history. Helsinki: The Finno-Ugrian Society.
17. Kayser M, Roewer L, Hedman M, Henke L, Henke J, Brauer S, Krüger K, Krawczak M, Nagy M, Dobosz T, Szibor R, de Knijff P, Sajantila A. 2000. Characteristics and frequency of germline mutations at microsatellite loci from the human Y chromosome, as revealed by direct observation in father/son pairs. Am J Hum Genet 66:1580-1588.
18. Konstantinov IV. 1975. The origins of the Yakut people and their culture (in Russian). Yakutsk: Yakutskiy Filial SO AN SSSR. p 106-173. Publications of the Prilenskaya Archaeological Expedition.
19. Macaulay VA, Richards MB, Forster P, Bendall KE, Watson E, Sykes B, Bandelt HJ. 1997. mtDNA mutation rates-No need to panic. Am J Hum Genet 61:983-990.
20. Meyer S, Weiss G, Haeseler A. 1999. Pattern of nucleotide substitution and rate heterogeneity in hypervariable regions I and II of human mtDNA. Genetics 152:1103-1110. (Pubitemid 29330909)
21. Okladnikov AP. 1956. Ancient population of Siberia and its culture (in Russian). In: Levin MG, Potapov LP, editors. Narody Sibiri. Moscow: Russian Academy of Science. p 13-98.
22. Okladnikov AP. 1970. Yakutia: Before its incorporation into the Russian state. Montreal: McGill-Queen's University Press.
23. Pakendorf B, Novgorodov IN, Osakovskij VL, Danilova AP, Protod'jakonov AP, Stoneking M. 2006. Investigating the effects of prehistoric migrations in Siberia: Genetic variation and the origins of Yakuts. Hum Genet 120:334-353.
24. Pakendorf B, Stoneking M. 2005. Mitochondrial DNA and human evolution. Ann Rev Genom Hum Genet 6:165-183.
25. 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. (Pubitemid 36253633)
26. Puzyrev VP, Stepanov VA, Golubenko MV, Puzyrev KV, Maximova NR, Kharkov VN, Spiridonova MG, Nogovitsina AN. 2003. mtDNA and Y-chromosomal lineages in the Yakut population. Russ J Genet 39:816-822. (Pubitemid 39555915)
27. Ray N, Currat M, Excoffier L. 2003. Intra-deme molecular diversity in spatially expanding populations. Mol Biol Evol 20: 76-86. (Pubitemid 36077902)
28. Ricaut F-X, Kolodesnikov S, Keyser-Tracqui C, Alekseev AN, Crubézy E, Ludes B. 2004. Genetic analysis of human remains found in two eighteenth century Yakut graves at At- Dabaan. Int J Legal Med 118:24-31. (Pubitemid 38325690)
29. Ricaut F-X, Kolodesnikov S, Keyser-Tracqui C, Alekseev AN, Crubézy E, Ludes B. 2006. Molecular genetic analysis of 400- year-old human remains found in two Yakut burial sites. Am J Phys Anthropol 129:55-63. (Pubitemid 41821661)
30. Rogers AR, Harpending H. 1992. Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol 9:552-569.
31. Ruhlen M. 1987. A guide to the world's languages. Stanford: Stanford University Press.
32. Sherry ST, Rogers AR, Harpending H, Soodyall H, Jenkins T, Stoneking M. 1994. Mismatch distributions of mtDNA reveal recent human population expansions. Hum Biol 66:761-775. (Pubitemid 2159903)
33. Shirokogoroff SM. 1966. Social organization of the northern Tungus. Netherlands: Anthropological Publications.
34. Siguroardóttir S, Helgason A, Gulcher JR, Stefánsson K, Donnelly P. 2000. The mutation rate in the human mtDNA control region. Am J Hum Genet 66:1599-1609. (Pubitemid 30463079)
35. Tamura K, Nei M. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10:512-526. (Pubitemid 23157236)
36. Tokarev SA, Gurvich IS. 1956. The Yakuts (in Russian). In: Levin MG, Potapov LP, editors. Narody Sibiri. Moscow: Russian Academy of Science. p 267-328.
37. Vasilevich GM. 1969. Evenki. Istoriko-etnograficheskie ocherki. Leningrad: Izdatel'stvo, Nauka' Leningradskoe otdelenie.
38. Ward RH, Frazier BL, Dew-Jager K, Pääbo S. 1991. Extensive mitochondrial diversity within a single Amerindian tribe. Proc Natl Acad Sci USA 88:8720-8724. (Pubitemid 21915428)
39. 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.
40. Zlojutro M, Tarskaia LA, Sorensen M, Snodgrass JJ, Leonard WR, Crawford MH. 2008. The origins of the Yakut people: Evidence from mitochondrial DNA diversity. Int J Hum Genet 8:119-130.