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Genetics. Sep 2003; 165(1): 229–234.
PMCID: PMC1462739

Rare deep-rooting Y chromosome lineages in humans: lessons for phylogeography.

Abstract

There has been considerable debate on the geographic origin of the human Y chromosome Alu polymorphism (YAP). Here we report a new, very rare deep-rooting haplogroup within the YAP clade, together with data on other deep-rooting YAP clades. The new haplogroup, found so far in only five Nigerians, is the least-derived YAP haplogroup according to currently known binary markers. However, because the interior branching order of the Y chromosome genealogical tree remains unknown, it is impossible to impute the origin of the YAP clade with certainty. We discuss the problems presented by rare deep-rooting lineages for Y chromosome phylogeography.

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Selected References

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  • Qian Y, Qian B, Su B, Yu J, Ke Y, Chu Z, Shi L, Lu D, Chu J, Jin L. Multiple origins of Tibetan Y chromosomes. Hum Genet. 2000 Apr;106(4):453–454. [PubMed]
  • Spurdle AB, Hammer MF, Jenkins T. The Y Alu polymorphism in southern African populations and its relationship to other Y-specific polymorphisms. Am J Hum Genet. 1994 Feb;54(2):319–330. [PMC free article] [PubMed]
  • Bohossian HB, Skaletsky H, Page DC. Unexpectedly similar rates of nucleotide substitution found in male and female hominids. Nature. 2000 Aug 10;406(6796):622–625. [PubMed]
  • Templeton AR. Nested clade analyses of phylogeographic data: testing hypotheses about gene flow and population history. Mol Ecol. 1998 Apr;7(4):381–397. [PubMed]
  • Bravi CM, Bailliet G, Martinez-Marignac VL, Bianchi NO. Origin of YAP+ lineages of the human Y-chromosome. Am J Phys Anthropol. 2000 Jun;112(2):149–158. [PubMed]
  • Templeton AR, Routman E, Phillips CA. Separating population structure from population history: a cladistic analysis of the geographical distribution of mitochondrial DNA haplotypes in the tiger salamander, Ambystoma tigrinum. Genetics. 1995 Jun;140(2):767–782. [PMC free article] [PubMed]
  • Cruciani Fulvio, Santolamazza Piero, Shen Peidong, Macaulay Vincent, Moral Pedro, Olckers Antonel, Modiano David, Holmes Susan, Destro-Bisol Giovanni, Coia Valentina, et al. A back migration from Asia to sub-Saharan Africa is supported by high-resolution analysis of human Y-chromosome haplotypes. Am J Hum Genet. 2002 May;70(5):1197–1214. [PMC free article] [PubMed]
  • Thangaraj Kumarasamy, Singh Lalji, Reddy Alla G, Rao V Raghavendra, Sehgal Subhash C, Underhill Peter A, Pierson Melanie, Frame Ian G, Hagelberg Erika. Genetic affinities of the Andaman Islanders, a vanishing human population. Curr Biol. 2003 Jan 21;13(2):86–93. [PubMed]
  • Hammer MF. A recent insertion of an alu element on the Y chromosome is a useful marker for human population studies. Mol Biol Evol. 1994 Sep;11(5):749–761. [PubMed]
  • Hammer MF, Horai S. Y chromosomal DNA variation and the peopling of Japan. Am J Hum Genet. 1995 Apr;56(4):951–962. [PMC free article] [PubMed]
  • Hammer MF, Spurdle AB, Karafet T, Bonner MR, Wood ET, Novelletto A, Malaspina P, Mitchell RJ, Horai S, Jenkins T, et al. The geographic distribution of human Y chromosome variation. Genetics. 1997 Mar;145(3):787–805. [PMC free article] [PubMed]
  • Underhill PA, Passarino G, Lin AA, Shen P, Mirazón Lahr M, Foley RA, Oefner PJ, Cavalli-Sforza LL. The phylogeography of Y chromosome binary haplotypes and the origins of modern human populations. Ann Hum Genet. 2001 Jan;65(Pt 1):43–62. [PubMed]
  • Hammer MF, Karafet T, Rasanayagam A, Wood ET, Altheide TK, Jenkins T, Griffiths RC, Templeton AR, Zegura SL. Out of Africa and back again: nested cladistic analysis of human Y chromosome variation. Mol Biol Evol. 1998 Apr;15(4):427–441. [PubMed]
  • Hammer MF, Karafet TM, Redd AJ, Jarjanazi H, Santachiara-Benerecetti S, Soodyall H, Zegura SL. Hierarchical patterns of global human Y-chromosome diversity. Mol Biol Evol. 2001 Jul;18(7):1189–1203. [PubMed]
  • Weale ME, Yepiskoposyan L, Jager RF, Hovhannisyan N, Khudoyan A, Burbage-Hall O, Bradman N, Thomas MG. Armenian Y chromosome haplotypes reveal strong regional structure within a single ethno-national group. Hum Genet. 2001 Dec;109(6):659–674. [PubMed]
  • Karafet TM, Zegura SL, Posukh O, Osipova L, Bergen A, Long J, Goldman D, Klitz W, Harihara S, de Knijff P, et al. Ancestral Asian source(s) of new world Y-chromosome founder haplotypes. Am J Hum Genet. 1999 Mar;64(3):817–831. [PMC free article] [PubMed]
  • Kayser Manfred, Brauer Silke, Weiss Gunter, Schiefenhövel Wulf, Underhill Peter, Shen Peidong, Oefner Peter, Tommaseo-Ponzetta Mila, Stoneking Mark. Reduced Y-chromosome, but not mitochondrial DNA, diversity in human populations from West New Guinea. Am J Hum Genet. 2003 Feb;72(2):281–302. [PMC free article] [PubMed]
  • A nomenclature system for the tree of human Y-chromosomal binary haplogroups. Genome Res. 2002 Feb;12(2):339–348. [PMC free article] [PubMed]

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