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references.bib
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@ARTICLE{Green2010-rv,
title = "A draft sequence of the Neandertal genome",
author = "Green, Richard E and Krause, Johannes and Briggs, Adrian W and
Maricic, Tomislav and Stenzel, Udo and Kircher, Martin and
Patterson, Nick and Li, Heng and Zhai, Weiwei and Fritz, Markus
Hsi-Yang and Hansen, Nancy F and Durand, Eric Y and Malaspinas,
Anna-Sapfo and Jensen, Jeffrey D and Marques-Bonet, Tomas and
Alkan, Can and Prüfer, Kay and Meyer, Matthias and Burbano,
Hernán A and Good, Jeffrey M and Schultz, Rigo and Aximu-Petri,
Ayinuer and Butthof, Anne and Höber, Barbara and Höffner,
Barbara and Siegemund, Madlen and Weihmann, Antje and Nusbaum,
Chad and Lander, Eric S and Russ, Carsten and Novod, Nathaniel
and Affourtit, Jason and Egholm, Michael and Verna, Christine
and Rudan, Pavao and Brajkovic, Dejana and Kucan, Zeljko and
Gusic, Ivan and Doronichev, Vladimir B and Golovanova, Liubov V
and Lalueza-Fox, Carles and de la Rasilla, Marco and Fortea,
Javier and Rosas, Antonio and Schmitz, Ralf W and Johnson,
Philip L F and Eichler, Evan E and Falush, Daniel and Birney,
Ewan and Mullikin, James C and Slatkin, Montgomery and Nielsen,
Rasmus and Kelso, Janet and Lachmann, Michael and Reich, David E
and Pääbo, Svante",
abstract = "Neandertals, the closest evolutionary relatives of present-day
humans, lived in large parts of Europe and western Asia before
disappearing 30,000 years ago. We present a draft sequence of
the Neandertal genome composed of more than 4 billion
nucleotides from three individuals. Comparisons of the
Neandertal genome to the genomes of five present-day humans from
different parts of the world identify a number of genomic
regions that may have been affected by positive selection in
ancestral modern humans, including genes involved in metabolism
and in cognitive and skeletal development. We show that
Neandertals shared more genetic variants with present-day humans
in Eurasia than with present-day humans in sub-Saharan Africa,
suggesting that gene flow from Neandertals into the ancestors of
non-Africans occurred before the divergence of Eurasian groups
from each other.",
journal = "Science",
publisher = "American Association for the Advancement of Science",
volume = 328,
number = 5979,
pages = "710--722",
month = "7~" # may,
year = 2010,
url = "http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=20448178&retmode=ref&cmd=prlinks",
file = "All Papers/G/Green et al. 2010 - A draft sequence of the Neandertal genome.pdf;All Papers/G/Green et al. 2010 - Green_2010_Science.pdf",
issn = "0036-8075"
}
@ARTICLE{Lamnidis2018-xa,
title = "Ancient Fennoscandian genomes reveal origin and spread of
Siberian ancestry in Europe",
author = "Lamnidis, Thiseas C and Majander, Kerttu and Jeong, Choongwon and
Salmela, Elina and Wessman, Anna and Moiseyev, Vyacheslav and
Khartanovich, Valery and Balanovsky, Oleg and Ongyerth, Matthias
and Weihmann, Antje and Sajantila, Antti and Kelso, Janet and
Pääbo, Svante and Onkamo, Päivi and Haak, Wolfgang and Krause,
Johannes and Schiffels, Stephan",
abstract = "European population history has been shaped by migrations of
people, and their subsequent admixture. Recently, ancient DNA has
brought new insights into European migration events linked to the
advent of agriculture, and possibly to the spread of
Indo-European languages. However, little is known about the
ancient population history of north-eastern Europe, in particular
about populations speaking Uralic languages, such as Finns and
Saami. Here we analyse ancient genomic data from 11 individuals
from Finland and north-western Russia. We show that the genetic
makeup of northern Europe was shaped by migrations from Siberia
that began at least 3500 years ago. This Siberian ancestry was
subsequently admixed into many modern populations in the region,
particularly into populations speaking Uralic languages today.
Additionally, we show that ancestors of modern Saami inhabited a
larger territory during the Iron Age, which adds to the
historical and linguistic information about the population
history of Finland.",
journal = "Nature Communications",
volume = 9,
number = 1,
pages = "5018",
month = "27~" # nov,
year = 2018,
url = "https://doi.org/10.1038/s41467-018-07483-5",
annote = "\{pdf:
``https://www.nature.com/articles/s41467-018-07483-5.pdf''\}",
file = "All Papers/L/Lamnidis et al. 2018 - Ancient Fennoscandian genomes reveal origin and spread of Siberian ancestry in Europe.pdf;All Papers/L/Lamnidis et al. 2018 - Lamnidis et al. 2018 - SI.pdf",
keywords = "role\_lead",
issn = "2041-1723",
doi = "10.1038/s41467-018-07483-5"
}
@ARTICLE{Lazaridis2014-ef,
title = "Ancient human genomes suggest three ancestral populations for
present-day Europeans",
author = "Lazaridis, Iosif and Patterson, Nick and Mittnik, Alissa and
Renaud, Gabriel and Mallick, Swapan and Kirsanow, Karola and
Sudmant, Peter H and Schraiber, Joshua G and Castellano, Sergi
and Lipson, Mark and Berger, Bonnie and Economou, Christos and
Bollongino, Ruth and Fu, Qiaomei and Bos, Kirsten I and
Nordenfelt, Susanne and Li, Heng and de Filippo, Cesare and
Prüfer, Kay and Sawyer, Susanna and Posth, Cosimo and Haak,
Wolfgang and Hallgren, Fredrik and Fornander, Elin and Rohland,
Nadin and Delsate, Dominique and Francken, Michael and Guinet,
Jean-Michel and Wahl, Joachim and Ayodo, George and Babiker,
Hamza A and Bailliet, Graciela and Balanovska, Elena and
Balanovsky, Oleg and Barrantes, Ramiro and Bedoya, Gabriel and
Ben-Ami, Haim and Bene, Judit and Berrada, Fouad and Bravi,
Claudio M and Brisighelli, Francesca and Busby, George B J and
Cali, Francesco and Churnosov, Mikhail and Cole, David E C and
Corach, Daniel and Damba, Larissa and van Driem, George and
Dryomov, Stanislav and Dugoujon, Jean-Michel and Fedorova,
Sardana A and Gallego Romero, Irene and Gubina, Marina and
Hammer, Michael and Henn, Brenna M and Hervig, Tor and
Hodoglugil, Ugur and Jha, Aashish R and Karachanak-Yankova, Sena
and Khusainova, Rita and Khusnutdinova, Elza and Kittles, Rick
and Kivisild, Toomas and Klitz, William and Kučinskas, Vaidutis
and Kushniarevich, Alena and Laredj, Leila and Litvinov, Sergey
and Loukidis, Theologos and Mahley, Robert W and Melegh, Béla and
Metspalu, Ene and Molina, Julio and Mountain, Joanna and
Näkkäläjärvi, Klemetti and Nesheva, Desislava and Nyambo, Thomas
and Osipova, Ludmila and Parik, Jüri and Platonov, Fedor and
Posukh, Olga and Romano, Valentino and Rothhammer, Francisco and
Rudan, Igor and Ruizbakiev, Ruslan and Sahakyan, Hovhannes and
Sajantila, Antti and Salas, Antonio and Starikovskaya, Elena B
and Tarekegn, Ayele and Toncheva, Draga and Turdikulova, Shahlo
and Uktveryte, Ingrida and Utevska, Olga and Vasquez, René and
Villena, Mercedes and Voevoda, Mikhail and Winkler, Cheryl A and
Yepiskoposyan, Levon and Zalloua, Pierre and Zemunik, Tatijana
and Cooper, Alan and Capelli, Cristian and Thomas, Mark G and
Ruiz-Linares, Andres and Tishkoff, Sarah A and Singh, Lalji and
Thangaraj, Kumarasamy and Villems, Richard and Comas, David and
Sukernik, Rem and Metspalu, Mait and Meyer, Matthias and Eichler,
Evan E and Burger, Joachim and Slatkin, Montgomery and Pääbo,
Svante and Kelso, Janet and Reich, David and Krause, Johannes",
abstract = "We sequenced the genomes of a ∼7,000-year-old farmer from Germany
and eight ∼8,000-year-old hunter-gatherers from Luxembourg and
Sweden. We analysed these and other ancient genomes with 2,345
contemporary humans to show that most present-day Europeans
derive from at least three highly differentiated populations:
west European hunter-gatherers, who contributed ancestry to all
Europeans but not to Near Easterners; ancient north Eurasians
related to Upper Palaeolithic Siberians, who contributed to both
Europeans and Near Easterners; and early European farmers, who
were mainly of Near Eastern origin but also harboured west
European hunter-gatherer related ancestry. We model these
populations' deep relationships and show that early European
farmers had ∼44\% ancestry from a 'basal Eurasian' population
that split before the diversification of other non-African
lineages.",
journal = "Nature",
volume = 513,
number = 7518,
pages = "409--413",
month = "18~" # sep,
year = 2014,
url = "http://dx.doi.org/10.1038/nature13673",
file = "All Papers/L/Lazaridis et al. 2014 - Ancient human genomes suggest three ancestral populations for present-day Europeans.pdf;All Papers/L/Lazaridis et al. 2014 - Lazaridis_2014.pdf",
language = "en",
issn = "0028-0836, 1476-4687",
pmid = "25230663",
doi = "10.1038/nature13673",
pmc = "PMC4170574"
}
@ARTICLE{Haak2015-uw,
title = "Massive migration from the steppe was a source for
{Indo-European} languages in Europe",
author = "Haak, Wolfgang and Lazaridis, Iosif and Patterson, Nick and
Rohland, Nadin and Mallick, Swapan and Llamas, Bastien and
Brandt, Guido and Nordenfelt, Susanne and Harney, Eadaoin and
Stewardson, Kristin and Fu, Qiaomei and Mittnik, Alissa and
Bánffy, Eszter and Economou, Christos and Francken, Michael and
Friederich, Susanne and Pena, Rafael Garrido and Hallgren,
Fredrik and Khartanovich, Valery and Khokhlov, Aleksandr and
Kunst, Michael and Kuznetsov, Pavel and Meller, Harald and
Mochalov, Oleg and Moiseyev, Vayacheslav and Nicklisch, Nicole
and Pichler, Sandra L and Risch, Roberto and Rojo Guerra, Manuel
A and Roth, Christina and Szécsényi-Nagy, Anna and Wahl, Joachim
and Meyer, Matthias and Krause, Johannes and Brown, Dorcas and
Anthony, David and Cooper, Alan and Alt, Kurt Werner and Reich,
David E",
abstract = "We generated genome-wide data from 69 Europeans who lived
between 8,000-3,000 years ago by enriching ancient DNA libraries
for a target set of almost 400,000 polymorphisms. Enrichment of
these positions decreases the sequencing required for
genome-wide ancient DNA analysis by a median of around 250-fold,
allowing us to study an order of magnitude more individuals than
previous studies and to obtain new insights about the past. We
show that the populations of Western and Far Eastern Europe
followed opposite trajectories between 8,000-5,000 years ago. At
the beginning of the Neolithic period in Europe, ∼8,000-7,000
years ago, closely related groups of early farmers appeared in
Germany, Hungary and Spain, different from indigenous
hunter-gatherers, whereas Russia was inhabited by a distinctive
population of hunter-gatherers with high affinity to a
∼24,000-year-old Siberian. By ∼6,000-5,000 years ago, farmers
throughout much of Europe had more hunter-gatherer ancestry than
their predecessors, but in Russia, the Yamnaya steppe herders of
this time were descended not only from the preceding eastern
European hunter-gatherers, but also from a population of Near
Eastern ancestry. Western and Eastern Europe came into contact
∼4,500 years ago, as the Late Neolithic Corded Ware people from
Germany traced ∼75\% of their ancestry to the Yamnaya,
documenting a massive migration into the heartland of Europe
from its eastern periphery. This steppe ancestry persisted in
all sampled central Europeans until at least ∼3,000 years ago,
and is ubiquitous in present-day Europeans. These results
provide support for a steppe origin of at least some of the
Indo-European languages of Europe.",
journal = "Nature",
publisher = "Nature Publishing Group",
volume = 522,
number = 7555,
pages = "207--211",
month = "2~" # mar,
year = 2015,
url = "http://www.nature.com/doifinder/10.1038/nature14317",
file = "All Papers/H/Haak et al. 2015 - Massive migration from the steppe was a source for Indo-European languages in Europe.pdf;All Papers/H/Haak et al. 2015 - Massive migration from the steppe was a source for Indo-European languages in Europe.pdf",
issn = "0028-0836"
}