Y-DNA Papers/Presentations Cited - 2009
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Disclaimer: The papers included here do not necessarily represent the first publication of some discoveries. In some cases, authors may be including the work of others. In this document ISOGG in no way is trying to assign credit to researchers. Some of the earlier research papers have been omitted because they use older naming conventions that would require further explanation.

Author, Year, Paper, Journal Haplogroup(s)
Adams S.M., King T.E., Bosch E., Jobling M.A. (2006).
The Case of the Unreliable SNP: Recurrent Back-mutation of Y-chromosomal Marker P25 Through Gene Conversion. (abstract) Forensic Science International 159:14-20.
Alonso S, Flores C., Cabrera, V. Alonso, A., Martin P, Albarran C., Izagirre, N, de la Rua C, Garcia O, (2005).
The Place of the Basques in the European Y-chromosome Diversity Landscape. (available by subscription) European Journal of Human Genetics, 13:1293-1302.
E, F, G, J, K, R, T
Athey T W, Schrack B E (2008-1).
A New Subclade of Y Haplogroup J2b. (pdf) Journal of Genetic Genealogy, 4(1):27-34.
Athey T W, Wilson J F (2008-2).
Y-SNP rs34134567 Defines a Large Subgroup of Haplogroup G2a-P15. (pdf) Journal of Genetic Genealogy, 4(2):149-150.
Athey T W, Nordtvedt K (2005).
Resolving the Placement of Haplogroup I-M223 in the Y-chromosome Phylogenetic Tree. (pdf) Journal of Genetic Genealogy, 1:54-55.
Balanovsky O, Rootsi S, Pshenichnov A, Kivisild T, Churnosov M, Evseeva I, Pocheshkhova E, Boldyreva M, Yankovsky N, Balanovska E, and Villems R (2008).
Two Sources of the Russian Patrilineal Heritage in Their Eurasian Context. (pdf) American Journal of Human Genetics, 82(1):236-250.
Battaglia V, Fornarino S, Al-Zahery N, Olivieri A, Pala M, Myres N M, King R J, Rootsi S, Marjanovic D, Primorac D, Hadziselimovic R, Vidovic S, Drobnic K, Durmishi11 N, Torroni1 A, Santachiara-Benerecetti A S, Underhill P A, Semino O, (2008).
Y-chromosomal Evidence of the Cultural Diffusion of Agriculture in Southeast Europe European Journal of Human Genetics, 249.
Behar D M, Garrigan D, Kaplan M E, Mobasher Z, Rosengarten D, Karafet T M, Quintana-Murci L, Ostrer H, Skorecki K, Hammer M F, (2004).
Contrasting Patterns of Y chromosome Variation in Ashkenazi Jewish and Host Non-Jewish European Populations. (pdf) Hum Genet 114:354-365.
E, F, G, J, K, L, N, P, Q, R
Bortolini M-C, Salzano FM, Thomas MG, Stuart S, Nasanen SPK, Bau CHD, Hutz MH, Layrisse Z, Petzl-Erler ML, Tsuneto LT, Hill K, Hurtado AM, Castro-de-Guerra D, Torres MM, Groot H, Michalski R, Nymadawa P, Bedoya G, Bradman N, Labuda D, and Ruiz-Linares A, (2003).
Y-Chromosome Evidence for Differing Ancient Demographic Histories in the Americas. American Journal of Human Genetics, 73:524-539,
C, E, K, P, Q, T
Butler J M, (2003)
Recent Developments in Y-Short Tandem Repeat and Y-Single Nucleotide Polymorphism Analysis. (pdf) Forensic Science Review, Vol. 15, No. 2, 100-111.
Main Tree; also refers to SNPs on A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R
Cadenas A M, Zhivotovsky L A, Cavalli-Sforza L L, Underhill P A, HerreraR J, (2008).
Y-chromosome Diversity Characterizes the Gulf of Oman. European Journal of Human Genetics, 16:374-386.
Capelli C, Redhead, N, Romano V, Cali F, Lefranc, G, Delague V, Megarbane A, Felice A E, Pascali V L, Neophytou P I, Poulli Z, Novelletto A, Malaspina P, Terrenato L, Berebbi A, Fellous M, Thomas M G, Goldstein D B, (2005).
Population Structure in the Mediterranean Basin: A Y Chromosome Perspective. (pdf) Annals of Human Genetics.
C, E, J, P, R
Chandrasekar A, Saheb, S Y, Gangopadyaya P, GangopayayaS, Mukherjee A, Basu D, Lakshmi G R, Sahani A K, Cas B, Battacharya S, Kumar S, Xavior D, Sun D, Rao V R, (2007).
YAP Insertion Signature in South Asia. Annals of Human Biology, 34(5);582-6.
Main Tree
Cinnioglu C, King R, Kivisild T, Kalfoglu E, Atasoy S, Cavalleri G L, Lillie A S, Roseman C C, Lin A A, Prince K, Oefner P J, Shen P, Semino O, Cavalli-Sforza L L, Underhill P A, (2004).
Excavating Y-chromosome Haplotype Strata in Anatolia. (pdf) Human Genetics, 114:127-148.
A, C, E, G, H, I, J, K, L, N, O, Q, R, T
Cox M P, Lahr M M (2006).
Y-Chromosome Diversity Is Inversely Associated with Language Affiliation in Paired Austronesian- and Papuan-Speaking Communities from Solomon Islands. (pdf) American Journal of Human Biology, 18:35-50.
K, M, O, S
Cruciani F, Santolamazza P, Shen P, Macaulay V., Moral P, Olckers A, Modiano D, Holmes S, Destro-Bisol G, Coia V, Wallace D C, Oefner P J, Torroni A, Cavalli-Sforza L L, Scozarri R, Underhill P A, (2002).
A Back Migration from Asia to Sub-Saharan Africa Is Supported by High-Resolution Analysis of Human Y-Chromosome Haplotypes. (pdf) American Journal of Human Genetics, 70:1197-1214.
A, B, D, E, F, G, J, K, L, O, R, T
Cruciani F, La Fratta R, Santolamazza P, Sellito D, Pascone R, Moral P, Watson E, Guida V, Beraud Colomb E, Zaharova B, Lavinha J, Vona G, Aman R, Cali F, Akar N, Richards M, Torroni A, Novelletto A, Scozzari R, (2004).
Phylogeographic Analysis of Haplogroup E3b (E-M215) Y Chromosomes Reveals Multiple Migratory Events Within and Out of Africa. (pdf) American Journal of Human Genetics, 74:1014-1022.
D, E
Cruciani F, La Fratta R, Torroni A, Underhill P A, Scozzari R, (2006).
Molecular Dissection of the Y Chromosome Haplogroup E-M78 (E3b1a): A Posteriori Evaluation of a Microsatellite-Networked-Based Approach Through Six New Biallelic Markers. Human Mutation: Mutation in Brief #916.
Cruciani F, La Fratta R, Trombetta B, Santolamazza P, Sellitto D, Colomb E B, Dugoujon J-M, Crivellaro F, Benincasa T, Pascone R, Moral P, Watson E, Melegh B, Barbujani G, Fusselli S, Vona G, Zagradisnik B, Assum G, Brdicka R, Kozlov A I, Efremov G D, Coppa A, Novelletto A, Scozzari R, (2007).
Tracing Past Human Male Movements in Northern/Eastern Africa and Western Eurasia: New Clues from Y-Chromosomal Haplogroups E-M78 and J-M12. (pdf) Molecular Biology and Evolution 24(6):1300-1311.
E, J
Cruciani F, Trombetta B, Novelletto A, Scozzari R, (2008).
Recurrent Mutation in SNPs within Y chromosome E3b (E-M215) Haplogroup: A Rebuttal. (abstract) American Journal of Human Biolology. Sep-Oct; 20(5):614-6.
Deng W, Shi B, He X, Zhang Z, Xu J, Li B, Yang J, Ling L, Dai C, Qiang B, Shen Y, Chen R, (2004).
Evolution and Migration History of the Chinese Population Inferred from the Chinese Y-chromosome Evidence. (pdf) Journal of Human Genetics, 49:339-348.
A, C, D, E, K, L, O, P, Q, R
Derenko M, Malyarchuk B, Denisova GA, Wozniak M, Dambueva I, Dorzhu C, Luzina F, Danuta Miscicka-Sliwka D, Zakharov I, (2006).
Contrasting Patterns of Y-Chromosome Variation in South Siberian Populations from Baikal and Altai-Sayan Regions, Human Genetics, 118:591-604.
Di Giacomo F, Luca F, Popa L O, Akar N, Anagnou N, Banyko J, Brdicka R, Barbujani G, Papola F, Ciavarella G, Cucci F, Di Stasi L, Gavrila L, Kerimova M G, Kovatchev D, Kozlov A I, Loutradis A, Mandarino V, Mammi C, Michalodimitrakis E N, Paoli G, Pappa K I, Pedicini G, Terrenato L, Tofanelli A, Mapaspina P, Novelletto A, (2004).
Y Chromosomal Haplogroup J as a Signature of the Post-Neolithic Colonization of Europe. (pdf) Human Genetics, 115:357-371.
Flores G, Maca-Meyer N, Gonzalez A M, Oefner P J, Shen P, Perez, J A, Rojas A, Larruga J M, Underhill, P A, (2004).
Reduced Genetic Structure of the Iberian Peninsula Revealed by Y-chromosome Analysis: Implications for population demography. (pdf) European Journal of Human Genetics, 12:855-863.
E F, K, N, P, R, T
Gayden T, Cadenas A M, Regueiro M, Singh N B, Zhivotovsky L A, Underhill P A, Cavalli-Sforza L L, and Herrera R J (2007)
The Himalayas as a Directional Barrier to Gene Flow. American Journal of Human Genetics, 80(5):884-894, 2007.
D, N,
Hammer M F, Krafet T M, Park H, Omoto K, Harihara S, Stoneking M, Harai S, (2006).
Dual Origins of the Japanese: Common Ground for Hunter-gatherer and Farmer Y Chromosomes. (abstract) Journal of Human Genetics, 51:47-58.
C, D, N, O
Hammer M F, Karafet T M, Redd A J, Jarjanazi H, Santachiara-Benerecetti A S, Soodyall H, Zegura S L, (2001).
Hierarchical Patterns of Global Human Y-Chromosome Diversity. (pdf) Molecular Biology and Evolution, 18:1189-1203.
Main Tree; also refers to SNPs on A, B, C, D, I, J, K, M, N, O, Q, R
Hammer M F, Chamberlain V F, Kearney V F, Stover D, Zhang G, Karafet T, Walsh B, Redd A J, (2005).
Population Structure of Y Chromosome SNP Haplogroups in the United States and Forensic Implications for Constructing Y Chromosome STR Databases. (in press) Forensic Science International.
Main Tree; also refers to SNPs on
Henn B M, Gignoux D, Lin A A, Oefner P J, Shen P, Scozzari R, Cruciani F, Tishkoff S A, Mountain J L, Underhill P A, (2008).
Y-chromosomal Evidence of a Pastoralist Migration through Tanzania to Southern Africa. PNAS, vol. 105 no. 31 10693-10698.
Hurles M E, Irven C, Nicholson J, Taylor P G, Santos F R, Loughlin J, Jobling M A, Sykes B C, (1998).
European Y-Chromosomal Lineages in Polynesians: A Contrast to the Population Structure Revealed by mtDNA. American Journal of Human Genetics, 63:1793-1806.
Hurles M E, Nicholson J, Bosch E, Renfew C, Sykes B C, Jobling M A, (2002).
Y Chromosomal Evidence for the Origins of Oceanic-Speaking Peoples. Genetics, 160:289-303.
Jobling M A, Tyler-Smith C, (2003).
The Human Y Chromosome: An Evolutionary Marker Comes of Age. Nature/Reviews/Genetics, 4:598-612.
Main Tree; also refers to SNPs on A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R
Karafet T M, Mendez F L, Meilerman M B, Underhill P A, Zegura S L, Hammer M F, (2008).
New Binary Polymorphisms Reshape and Increase Resolution of the Human Y-Chromosomal Haplogroup Tree. Abstract. Genome Research, published online April 2, 2008. Supplementary Material.
Main Tree; also refers to SNPs on A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R S T
Karafet T, Xu L, Du R, Wang W, Feng S, Wells R S, Redd A J, Zegura S L, Hammer M F, (2001).
Paternal Population History of East Asia: Sources, Patterns, and Microevolutionary Processes. (pdf) American Journal of Human Genetics, 69:615-628.
C, D, J, L, O, R
Karlsson A O, Wallerstrom T, Gotherstrom A, Holmlund G, (2006)
Y-chromosome Diversity in Sweden - A Long-time Perspective. (pdf) European Journal of Human Genetics, 4:963-970
N, R
Kayser M, Brauer S, Weiss G, Schiefenhovel W, Underhill P A, Stoneking M, (2001).
Independent Histories of Human Y Chromosomes from Melanesia and Australia. American Journal of Human Genetics, 68:173-190.
C, K, M, O, S
Kayser M, Brauer S, Cordaux R, Casto A, Lao O, Zhivotovsky L A, Moyse-Faurie C, Rutledge R B, Schiefenhovel W, Gil D, Lin A A, Underhill P A, Oefner P J, Trent R J, Stoneking M. (2006).
Melanesian and Asian Origins of Polynesians: mtDNA and Y-Chromosome Gradients across the Pacific. MBE Advance Access published August 21, 2006.
C, K, M, NO, O, S
Kayser M, Brauer S, Weiss G, Underhill P A, Roewer L, Schiefenhovel W, Stoneking M, (2000).
Melanesian Origin of Polynesian Y Chromosomes. Current Biology, Vol. 10, No. 20.
Kayser M. Brauer S., Weiss G., Schiefenhovel W, Underhill P, Shen P, Oefner P, Tommaseo-Ponzetta M, Stoneking M. (2003).
Reduced Y-Chromosome, but Not Mitochondrial DNA, Diversity in Human Populations from West New Guinea. American Journal of Human Genetics, 72:281-302.
C, F, K, M, O, P, R, S
King RJ, Ozcan SS, Carter T, Kalfoglu E, Atasoy S, Triantaphyllidis C, Kouvatsi A, Lin AA, Chow CET, Zhivotovsky LA, M. Michalodimitrakis M, Underhill PA (2008).
Differential Y-chromosome Anatolian Influences on the Greek and Cretan Neolithic. (abstract) Annals of Human Genetics 72:205-214.
E; G; J
Kivisild T, Rootsi S, Metspalu M, Mastana S, Kaldma K, Parik J, Metspalu E, Adojaan M, Tolk HV, Stepanov V, Golge M, Usanga E, Papiha S S, Cinnioglu C, King R, Cavalli-Sforza L, Underhill P A, Villems R, (2003).
The Genetic Heritage of the Earliest Settlers Persists in Both Indian Tribal and Caste Populations. (pdf) American Journal of Human Genetics, 72:313-332.
C, F, G, H, J, K, L, P, R, T
McEvoy B, Bradley D G, (2006).
Y-chromosomes and the Extent of Patrilineal Ancestry in Irish Surnames (abstract) Human Genetics 2006 Jan 12;:1-8 (Epub ahead of print).
Mohyuddin A., Ayub Q, Underhill P A, Tyler-Smith C, Mehdi S Q, (Feb. 10 2006).
Detection of Novel Y SNPs Provides Further Insights into Y Chromosomal Variation in Pakistan. (abstract) Journal of Human Genetics.
A, C, L, O, R
Moore L T, McEvoy B, Cape E, Simms K, Bradley D G, (2006).
A Y-chromosome Signature of Hegemony in Gaelic Ireland. American Journal of Human Genetics, 78(2):334-338.
Mona S, Tommaseo-Ponzetta M, Brauer S, Sudoyo H, Marzuki S, Kayser M. (2007).
Patterns of Y-chromosome Diversity Intersect with the Trans-New Guinea Hypothesis. Mol Biol Evol. 2007 Sep 10; [Epub ahead of print]
C, K, M, O, S
Myres N M, Elkins J E, Lin A A, Cavalli-Sforza, L L, Woodward S R, Underhill P A. (2007).
Y-chromosome Short Tandem Repeat DYS458.2 Non-concensus Alleles Occur Independently in Both Binary Haplogroups J1-M267 and R1b3-M405. Croatian Medical Journal, 48.
J, R
Nasidze I, Quinque D, Dupanloup I, Rychkov S, Naumova O, Zoukova O, Stoneking M, (2004).
Genetic Evidence Concerning the Origins of the South and North Ossetians. (abstract) Annals of Human Genetics, 68:588-599.
E, F, G, J, P, R
Nasidze I, Quinque D, Ozturk M, Bendukidze N, and Stoneking M, (2005).
MtDNA and Y-chromosome Variation in Kurdish Groups. (abstract) Annals of Human Genetics, 69:401-412.
C, E, F, G, J, K, P, R
Nonaka I, Minaguchi K, and Takezaki N. (2007).
Y Chromosomal Binary Haplogroups in the Japanese Population and their Relationship to 16 Y-STR Polymorphisms. (abstract) Annals of Human Genetics, 71:480-495.
D; O
Regueiro M, Cardenas A M, Gayden T, Underhill P A, Herrera T J, (2006).
Iran: Tricontinental Nexus for Y-Chromosome Driven Migration. (abstract) Human Heredity, Vol. 61, No 3., 132-143.
B, C, E, F, G, H, J, K, L, N, O, Q, R, T
Rootsi S, Zhivotovsky LA, Baldovic M, Kayser M, Kutuev I A, Khusainova1 R, Bermisheva1 M A, Gubina M, Fedorova1 S A, Ilumae1 A, Khusnutdinova E K, Voevoda M I, Osipova L P, Stoneking M, Lin A A, Ferak V, Parik J, Kivisild T, Underhill P A and Villems R. (2007).
A counter-clockwise northern route of the Y-chromosome haplogroup N from Southeast Asia towards Europe. European Journal of Human Genetics. 15: 204-211.
Rootsi S, (Oct 2004).
Human Y Chromosomal Variations in European Populations (dissertation) Council of the Institute of Molecular and Cell Biology, University of Tartu.
Main Tree; also significant reference to SNPs on N, O
Rootsi S, Magri C, Kisivild T, Benuzzi G, Help H, Bermisheva M, Kutuev I, Barac L, Pericic M, Balanovsky O, Pshenichnov A, Dion D, Grobei M, Zhivotovsky L A, Battaglia V, Achilli A, Al-Zahery N, Parik J, King R, Cinnioglu C, Kushnutdinova E, Rudan P, Balanovska E, Scheffrahn W, Simonescu M, Brehm A, Goncalves R, Rosa A, Joisan J-P, Chaventre A, Ferak V, Furedi S, Oefner P J, Shen P, Beckman L, Mikerezi I, Terzic R, Primorac D, Cambon-Thomsen A, Krumina A, Torroni A, Underhill P A, Santachiara-Benerecetti A S, Villems R, Semino O, (2004).
Phylogeography of Y-Chromosome Haplogroup I Reveals Distinct Domains of Prehistoric Gene Flow In Europe. American Journal of Human Genetics, 75:128-137.
Scheinfeldt L. Friedlaender F, Friedlaender J, Latham K, Koki G, Karafet T, Hammer M, Lorenz J, (2006).
Unexpected NRY Chromosome Variation in Northern Island Melanesia. (Link and comments from Dienekes' Anthropological Blog) Society for Molecular Biology, 2006.
C, K, K, M, O, S
Semino O, Santachiara-Benerecetti A S, Falaschi F, Cavalli-Sforza L L, Underhill P A, (2002).
Ethiopians and Khoisan Share the Deepest Clades of the Human Y-Chromosome Phylogeny. (pdf) American Journal of Human Genetics, 70:265-268.
A, B, E, F, G, J, K, R
Semino O, Magri C, Benuzzi G, Lin A A, Al-Zahery N, Battaglia V, Maccioni L, Triantaphyllidis C, Shen P, Oefner P J, Zhivotovsky L A, King R, Torroni A, Cavalli-Sforza L L, Underhill P A, Santachiara-Benerecetti A S, (2004).
Origin, Diffusion, and Differentiation of Y-Chromosome Haplogroups E and J: Inferences on the Neolithization of Europe and Later Migratory Events in the Mediterranean Area. (pdf) American Journal of Human Genetics, 74:1023-1034.
E, J
Sengupta S, Zhivotovsky L A, King R, Mehdi S Q, Edmonds C A, Chow C-A T, Lin A A Mitra M, Sil S K, Ramesh A, Rani M V U, Thakur C M, Cavalli-Sforza L L, Majumder P P, Underhill P A, (2006).
Polarity and Temporality of High Resolution Y-chromosome Distributions in India Identify Both Indigenous and Exogenous Expansions and Reveal Minor Genetic Influence of Central Asian Pastoralists. (pdf) American Journal of Human Genetics, 78:202-221.
C, D, E, F, G, H, J, K, L, N, O, R, T
Shen P, Lavi T, Kisivild T, Chou V, Sengun D, Gefel D, Shpirer I, Woolf E, Hillel J, Feldman M W, Oefner P J (2004).
Reconstruction of Patrilineages and Matrilineages of Samaritans and other Israeli Populations from Y-Chromosome and Mitochondrial DNA Sequence Variation. (pdf) Human Mutation, 24:248-260.
A, E, F, G, J, K, L, O, P, Q, R, T
Shi H, Zhong H, Peng Y, Dong Y-L, Qi X-B. Zhang F, Liu L-F, Tan S-J, Ma R Z, Xiao C-J, Wells R S, Jin L, Su B (2008).
Y-Chromosome Evidence of Earliest Modern Human Settlement in East Asia and Multiple Origins of Tibetan and Japanese Populations. (abstract) BMC Biology 2008, 6:45.
Shi H, Dong Y, Wen B, Xiao C, Underhill P, Shen P, Chakraborty R, Jin L, Su B, (2005).
Y-Chromosome Evidence of Southern Origin of the East Asian-Specific Haplogroup O3-M122. (aabstract) American Journal of Human Genetics. 77:408-419.
Sims L M, Garvey D, Ballantyne J (2006).
Differentiation of sub-populations within Y-SNP haplogroup G, (poster citation) Forensic Science Society, Autumn Conference, Wyboston, UK, November 3-5, 2006.
Sims L M, Garvey D, Ballantyne J (2009).
Improved Resolution Haplogroup G Phylogeny in the Y Chromosome, Revealed by a Set of Newly Characterized SNPs. (pdf) PLoS One, 4:6, e5792, 2009.
Sims L M, Garvey D, Ballantyne J (2007).
Sub-Populations Within the Major European and African Derived Haplogroups R1b3 and E3a Are Differentiated by Previously Phylogenetically Undefined Y-SNPs. Human Mutation: Mutation in Brief #940 (2007) Online.
E, I, R
Su B, Xiao J, Underhill P, Deka R, Zhang W, Akey J, Huang W, Shen D, Lu D, Luo J, Chu J, Tan J, Shen P, Davis R, Cavalli-Sforza L L, Chakraborty R, Xiong M, Du R, Oefner P, Chen Z, Jim L, (1999).
Y-chromosome Evidence for a Northward Migration of Modern Humans into Eastern Asia during the Last Ice Age. (pdf) American Journal of Human Genetics, 65:1718-1724.
D, F, K, O, P, Q, R, T
Tan S, Yang M, Yu H, Dong Y, Shou W, Zou J, Tang W, Guo Y, Xiao C, (2007).
Y-chromosome Polymorphisms Define the Origin of the Mang, an Isolated Population in China. Annals of Human Biology, Sep;34(5):573-581.
Thangaraj K, Singh L, Reddy A G, Rao V R, Sehgal S C, Underhill P A, Pierson M, Frame I G, Hagelberg E, (2003).
Genetic Affinities of the Andaman Islanders, a Vanishing Human Population. (pdf) Current Biology, 13:86-93.
D, K, L, O, P, T
Underhill P A, Myres N M, Rootsi S, Chow C T, Lin A A, Otillar R P, King R, Zhivotovsky L A, Balanovsky O, Pshenichnov A, Ritchie K H, Cavalli-Sforza L L, Kivisild T, Villems R, Woodward S R, (2007b).
New Phylogenetic Relationships for Y-chromosome Haplogroup I: Reappraising its Phylogeography and Prehistory. in Rethinking the Human Evolution, Mellars P, Boyle K, Bar-Yosef O, Stringer C, Eds. McDonald Institute for Archaeological Research, Cambridge, UK, 2007, pp. 33-42.
Underhill P A, Passarino G, Lin A A, Shen P, Mirazon Lahr M, Foley R A, Oefner P J, Cavalli-Sforza, L L, (2001).
The Phylogeography of Y Chromosome Binary Haplotypes and the Origins of Modern Human Populations. (pdf) Annals of Human Genetics, 65:43-62.
Main Tree; also refers to SNPs on B, C, D, E, F, H, I, J, K, L, M, N, O, P, Q, R
Underhill P A, Myres N M, Rootsi S, Metspalu M, Zhivotovsky L A, King R J, Lin A A, Chow C-E T, Semino O, Battaglia V, Kutuev I, Jarve M, Chaubey G, Ayub Q, Mohyuddin A, Mehdi S Q, Sengupta S, Rogaev E I, Khusnutdinova E K. Pshenichnov A, Balanovsky O, Balanovka E, Jeran N, Augustin D H, Baldovid M, Herrera R J, Thangaraj K, Singh V, Singh L, Majumder P, Rudan P, Primorac D, Villems S, Kivisild T. (2009).
Separating the Post-Glacial Coancestry of European and Asian Y Chromosomes within Haplogroup R1a. (abstract) European Journal of Human Genetics, 1-6.
Underhill P A, Kisivild T, (2007a).
Use of Y Chromosome and Mitochondrial DNA Population Structure in Tracing Human Migrations. (abstract) Annual Review Genetics 2007 Dec 1;41:539-564.
Main Tree, C, F
Underhill P A, Shen P, Lin A A, Passarino G, Yang W H, Karuffman E, Bonne-Tamir B, Bertranpetit J, Francalacci P, Ibrahim M, Jenkins T, Kidd J R, Mehdi S Q, Seielstad M T, Wells R S, Piazza A, Davis R W, Feldman M W, Cavalli-Sforza L L, Oerner P J, (2000).
Y Chromosome Sequence Variation and the History of Human Populations. (pdf) Nature Genetics, 26: 358-361.
Main Tree; also refers to SNPs on
Valone P M, Butler, J M, (2004)
Y SNP Typing of African-American and Caucasian Samples Using Allele-Specific Hybridization and Primer Extension. (pdf) Journal of Forensic Science, 49:4.
A, B, E, G, R
Xue Y, Zerjal T, Bao W, Zhu S, Shu Q, Xu J, Du R, Fu S, Li P, Hurles M, Yang H and Tyler-Smith C. (2006)
Male Demography in East Asia: A North-South Contrast in Human Population Expansion Times. (abstract) Genetics, 172:2431-2439.
Y Chromosome Consortium (YCC), (2002).
A Nomenclature System for the Tree of Human Y-Chromosomal Binary Haplogroups. Genome Research, 12:339-348.
Main Tree; also refers to SNPs on A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R
Zalloua P A, Xue Y, Khalife1 J, Makhoul1 N, Debiane1 L, Platt D E , Royyuru A K, Herrera R J, Hernanz D F S, Blue-Smith J, Wells R S, Comas D, Bertranpetit J, Tyler-Smith C. (2008)
Y Chromosome Diversity in Lebanon is Structured by Recent Historical Events. (abstract) The American Journal of Human Genetics, Volume 82, Issue 4, 873-882, 28 March 2008.
J, R

Additional Older Papers: Haplogroup(s)
Hurles ME, Veitia R, Arroyo E, Armenteros M, Bertranpetit J, Perez-Lezaun A, Bosch E, Shlumukova M, Cambon-Thomsen A, McElreavey K, Lopez De Munain A, Rohl A, Wilson IJ, Singh L, Pandya A, Santos FR, Tyler-Smith C, Jobling MA, (1999).
Recent Male-mediated Gene Flow over a Linguistic Barrier in Iberia, Suggested by Analysis of a Y-chromosomal DNA Polymorphism. American Journal of Human Genetics, Nov;65(5):1437-48.
Jobling M, Samara, V, Pandya A, Fretwell N, Bernasconi B, Mitchell R J, Gerelsaikhan T, Dashnyam B, Sajamtila A, Salo P J, Nakahori Y, Disteche C M, Thangaraj K, Singh L, Crawford M H, Tyler Smith C, (1996).
Recurrent Duplication and Deletion Polymorphisms on the Long Arm of the Y Chromosome in Normal Males. Human Molecular Genetics, Vol 5, No. 11, 1767-1775.
Rosser ZH, Zerjal T, Hurles ME, Adojaan M, Alavantic D, Amorim A, Amos W, Armenteros M, Arroyo E, Barbujani G, Beckman G, Beckman L, Bertranpetit J, Bosch E, Bradley DG, Brede G, Cooper G, Corte-Real HB, de Knijff P, Decorte R, Dubrova YE, Evgrafov O, Gilissen A, Glisic S, Golge M, Hill EW, Jeziorowska A, Kalaydjieva L, Kayser M, Kivisild T, Kravchenko SA, Krumina A, Kucinskas V, Lavinha J, Livshits LA, Malaspina P, Maria S, McElreavey K, Meitinger TA, Mikelsaar AV, Mitchell RJ, Nafa K, Nicholson J, Norby S, Pandya A, Parik J, Patsalis PC, Pereira L, Peterlin B, Pielberg G, Prata MJ, Previdere C, Roewer L, Rootsi S, Rubinsztein DC, Saillard J, Santos FR, Stefanescu G, Sykes BC, Tolun A, Villems R, Tyler-Smith C, Jobling MA, (2000).
Y-chromosomal Diversity in Europe Is Clinal and Influenced Primarily by Geography, Rather than by Language. American Journal of Human Genetics, 2000 Dec;67(6):1526-43.
Semino O, Passarino G, Oefner P J, Lin A A, Abruzova S, Beckman L E, De Benedictis G, Francalacci P, Kouvatsi A, Limborska S, Marcikiae M, Mika A, Mika B, Primorac D, Santachiara-Benerecetti A S, Cavalli-Sforza L L, Underhill P. (2000).
The Genetic Legacy of Paleolithic Homo Sapiens Sapiens in Extant Europeans. (pdf) Science, V290:1155-1159.
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. (Abstract) Genome Research, 7(10):996-1005.
Wells R S, Yuldasheva N, Ruzibakiev R, Underhill P A, Evseeva I, Blue-Smith J, Jim L, Su B, Pitchappan R, Shanmuglakshmi S, Balakrisnan K, Read M, Pearson N M, Zerjal T, Webster M T, Zholoshvili I, Jamarjashvili E. Gambarov S, Nikbin B, Dostiev A, Aknazarov O, Zalloua P, Tsoy I, Kitaev M, Mirrakhimov M, Chariev A, Bodmer W, F. (2001).
The Eurasian Heartland: A Continental Perspective on Y-chromosome Diversity. PNAS, Vol. 98; 18:10244-10249.
Zerjal Zerjal T, Dashnyam B, Pandya A, Kayser M, Roewer L, Santos FR, Schiefenhovel W, Fretwell N, Jobling MA, Harihara S, Shimizu K, Semjidmaa D, Sajantila A, Salo P, Crawford MH, Ginter EK, Evgrafov OV, Tyler-Smith C, (1997).
Genetic Relationships of Asians and Northern Europeans, Revealed by Y-chromosomal DNA Analysis. American Journal of Human Genetics, 1997 May;60(5):1174-83.

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