Papers

*These authors contributed equally

2018

41. P Skoglund, I Mathieson (2018), Ancient human genomics: the first decade. Annual Review of Genomics and Human Genetics19:8.1–8.24, [PDF]

40. P Skoglund, S Mallick, N Patterson, D Reich (2018) No evidence for unknown archaic ancestry in South Asia. Nature Genetics,  doi:10.1038/s41588-018-0097-9

39. M Hajdinjak, Q Fu, A Hübner, M Petr, F Mafessoni, S Grote, P Skoglund, V Narasimham, H Rougier, I Crevecoeur, P Semal, M Soressi, S Talamo, J-J Hublin, I Gušić, Ž Kućan, P Rudan, LV Golovanova, VB Doronichev, C Posth, J Krause, P Korlević, S Nagel, B Nickel, M Slatkin, N Patterson,  D Reich, K Prüfer, M Meyer, S Pääbo*, J Kelso* (2018) Reconstructing the genetic history of late Neanderthals, Nature, doi:10.1038/nature26151

38. O Loreille, S Ratnayake, AL Bazinet, TB Stockwell, DD Sommer,N Rohland, S Mallick, P LF Johnson, P Skoglund, AJ Onorato, NH Bergman, D Reich, JA Irwin (2018) Biological sexing of a 4000-year-old Egyptian mummy head to assess the potential of nuclear DNA recovery from the most damaged and limited forensic specimens, Genes, 9(3), 135

37. M Lipson*, P Skoglund*, M Spriggs, F Valentin, S Bedford, R Shing, H Buckley, I Phillip, GK Ward, S Mallick, N Rohland, N Broomandkhoshbacht, O Cheronet, M Ferry, TK Harper, M Michel, J Oppenheimer, K Sirak, K Stewardson, K Auckland, AVS Hill, K Maitland, SJ Oppenheimer, T Parks, K Robson, TN Williams, DJ Kennett, AJ Mentzer, R Pinhasi, D Reich (2018) Population Turnover in Remote Oceania Shortly after Initial Settlement, Current Biology 28, 1-9 [PDF]

36. P Skoglund (2018) Northwest Passage to Scandinavia, Nature Ecology & Evolution, doi:10.1038/s41559-018-0505-7, [PDF]

2017

PREPRINTP Flegontov, N Ezgi Altinisik, P Changmai, N Rohland, S Mallick, DA Bolnick, F Candilio, O Flegontova, C Jeong, TK Harper, D Keating, DJ Kennett, AM Kim, TC Lamnidis, I Olalde, J Raff, RA Sattler, P Skoglund, EJ Vajda, S Vasilyev, E Veselovskaya, MG Hayes, DH O'Rourke, R Pinhasi, J Krause, D Reich, S Schiffels, Paleo-Eskimo genetic legacy across North America. bioRxiv, [PDF]

35. P Pečnerová, E Palkopoulou, CW Wheat, P Skoglund, S Vartanyan, A Tikhonov, P Nikolskiy, J van der Plicht, D Díez-del-Molino, L Dalén (2017), Mitogenome evolution in the last surviving Woolly Mammoth population reveals neutral and functional consequences of small population size, Evolution Letters, 1: 292–303.

34. L Fehren-Schmitz*, CL Jarman*, KM Harkins*, M Kayser, BN Popp, P Skoglund* (2017) Genetic Ancestry of Rapanui before and after European Contact, Current Biology, 27:1-7

33. K Prüfer, C de Filippo*, S Grote*, F Mafessoni*, P Korlević, M Hajdinjak, B Vernot, L Skov, P Hsieh, S Peyrégne, D Reher, C Hopfe, S Nagel, T Maricic, Q Fu, C Theunert, R Rogers, P Skoglund, M Chintalapati, M Dannemann, BJ Nelson, FM Key, P Rudan, Ž Kućan, I Gušić, LV Golovanova, VB Doronichev, N Patterson, D Reich, EE Eichler, M Slatkin, MH Schierup, A Andrés, J Kelso, M Meyer, S Pääbo (2017) A high-coverage Neandertal genome from Vindija Cave in Croatia, Science, doi: 10.1126/science.aao1887 (2017)

32. P Skoglund, J Thompson, ME Prendergast, A Mittnik*, K Sirak*, M Hajdinjak*, T Salie*, N Rohland, S Mallick, A Peltzer, A Heinze, I Olalde, M Ferry, E Harney, M Michel, K Stewardson, J Cerezo-Roman, C Chiumia, A Crowther, E Gomani-Chindebvu, AO Gidna, KM Grillo, G Hellenthal, R Helm, M Horton, S Lopez, AZP Mabulla, J Parkington, C Shipton, R Tibesasa, M Welling, V Hayes, DJ Kennett, R Ramesar, M Meyer, S Pääbo, N Patterson, A Morris, N Boivin, R Pinhasi, J Krause, D Reich (2017) Reconstructing prehistoric African population structure, Cell, 171:59-71 [PDF]

31. KA Owers, P Sjödin, CM Schlebusch, P Skoglund, H Soodyall, M Jakobsson (2017) Adaptation to disease exposure in indigenous southern African populations, Proceedings of the Royal Society B284: 20170226

30. DJ Kennett, S Plog, RJ George, BJ Culleton, AS Watson, P Skoglund, N Rohland, S Mallick, K Stewardson, L Kistler, SA LeBlanc, PM Whiteley, D Reich, GH Perry (2017) Archaeogenomic Evidence Reveals Prehistoric Matrilineal Dynasty, Nature Communications, 8: 14115

2016

29. P Skoglund, C Posth, K Sirak, M Spriggs, F Valentin, S Bedford, GA Clark, C Reepmeyer, D Fernandes, Q Fu, E Harney, M Lipson, S Mallick, M Novak, N Rohland, K Stewardson, S Abdullah, MP Cox, FR Friedlaender, JS Friedlaender, T Kivisild, G Koki, P Kusuma, DA Merriwether, F-X Ricaut, JTS Wee, N Patterson, J Krause, R Pinhasi*, D Reich* (2016) Genomic insights into the peopling of the Southwest Pacific, Nature, 538:510–513, [PDF]

28. S Mallick, H Li*, M Lipson*, I Mathieson*, M Gymrek, F Racimo, M Zhao, N Chennagiri, S Nordenfelt, A Tandon, P Skoglund, I Lazaridis, S Sankararaman, Q Fu, N Rohland, G Renaud , Y Erlich, T Willems, C Gallo, JP Spence, YS Song, G Poletti, F Balloux, G van Driem, P de Knijff, I Gallego Romero, AR Jha, DM Behar, CM Bravi, C Capelli, T Hervig, A Moreno-Estrada, OL Posukh, E Balanovska, O Balanovsky, S Karachanak-Yankova, H Sahakyan, D Toncheva, L Yepiskoposyan, C Tyler-Smith, Y Xue, MS Abdullah, A Ruiz-Linares, Cynthia M. Beall, Anna Di Rienzo, C Jeong, EB Starikovskaya, E Metspalu, J Parik, R Villems, BM Henn, U Hodoglugil, R Mahley, A Sajantila, G Stamatoyannopoulos, JTS Wee, R Khusainova, E Khusnutdinova, S Litvinov, G Ayodo, D Comas, M Hammer, T Kivisild, William Klitz, Cheryl Winkler, D Labuda, M Bamshad, LB Jorde, SA Tishkoff, W. Scott Watkins, M Metspalu, S Dryomov, R Sukernik, L Singh, K Thangaraj, S Pääbo, J Kelso, N Patterson, D Reich (2016) The Simons Genome Diversity Project: 300 genomes from 142 diverse populations, Nature538, 201–206, [PDF]

27. P Skoglund, D Reich (2016) A genomic view of the peopling of the Americas, Current Opinion in Genetics and Development, 41:27-35[preprint] [PDF]

26. Q Fu, C Posth*, M Hajdinjak*, M Petr, S Mallick, D Fernandes, A Furtwängler, W Haak, M Meyer, A Mittnik, B Nickel, A Peltzer, N Rohland, V Slon, S Talamo, I Lazaridis, M Lipson, I Mathieson, S Schiffels, P Skoglund , AP Derevianko, N Drozdov, V Slavinsky, A Tsybankov, R Grifoni Cremonesi, F Mallegni, B Gély, E Vacca, MR González Morales, LG Straus, C Neugebauer-Maresch, M Teschler-Nicola, S Constantin, OT Moldovan, S Benazzi, M Peresani, D Coppola, M Lari, Stefano Ricci, A Ronchitelli, F Valentin, C Thevenet, K Wehrberger, D Grigorescu, H Rougier, I Crevecoeur, D Flas, P Semal, MA Mannino, C Cupillard, H Bocherens, NJ Conard, K Harvati, V Moiseyev, DG Drucker, J Svoboda, MP Richards, D Caramelli, R Pinhasi, J Kelso, N Patterson, J Krause, S Pääbo, D Reich, (2016) The genetic history of Ice Age Europe, Nature, 534:200-205 [PDF]

2015

25. T Günther*, C Valdiosera*, H Malmström, I Ureña, R Rodriguez-Varela, Ó Sverrisdóttir, EA Daskalaki, P Skoglund, T Naidoo, EM Svensson, JM Bermúdez de Castro, E Carbonell, M Dunn, J Storå, E Iriarte, JL Arsuaga, J Miguel Carretero, A Götherström, M Jakobsson (2015) Ancient Genomes link early farmers from Atapuerca in Spain to modern-day Basques, PNAS, 112:11917–11922

24. P Skoglund, S Mallick, MC Bortolini, N Chennagiri, T nemeier, ML Petzl-Erler, FM Salzano, N Patterson, D Reich (2015) Genetic evidence for two founding populations of the Americas, Nature, 525:104-108 [PDF]

23. Q Fu*, M Hajdinjak*, OT Moldovan, S Constantin, S Mallick, P Skoglund, N Patterson, N Rohland, I Lazaridis, B Nickel, B Viola, K Prüfer, M Meyer, J Kelso, D Reich, S Pääbo (2015) An early modern human from Romania with a recent Neanderthal ancestorNature, 524:216–219 [PDF]

22. P Skoglund, E Ersmark, E Palkopoulou, L Dalén (2015) Ancient wolf genome reveals an early divergence of the ancestors of domestic dogs and admixture into high-latitude breeds, Current Biology 25:1515-1519, [PDF] [data]

21. E Palkopoulou, S Mallick, P Skoglund, J Enk, N Rohland, H Li, A Omrak, S Vartanyan, H Poinar, A Götherström, D Reich, L Dalén (2015) Complete genomes reveal signatures of demographic and genetic declines in the Woolly Mammoth, Current Biology, 25:1395-1400 [PDF]

20. RR da Fonseca, BD Smith, N Wales, E Cappellini, P Skoglund, M Fumagalli, JA Samaniego, C Carøe, MC. Ávila-Arcos, DE Hufnagel, T Sand Korneliussen, F Garrett Vieira, M Jakobsson, B Arriaza, E Willerslev, R Nielsen, MB Hufford, A Albrechtsen, J Ross-Ibarra, MTP Gilbert (2015) The origin and evolution of maize in the American Southwest, Nature Plants, 14003

19. M Krzewińska, G Bjørnstad, P Skoglund, PI Olason, J Bill, A Götherström, E Hagelberg (2015) Mitochondrial DNA variation in the Viking Age population of Norway, Philosophical Transactions of the Royal Society B, 370: 20130384

18. H Malmström*, A Linderholm*, P Skoglund, J Storå, P Sjödin, MTP Gilbert, G Holmlund, E Willerslev, M Jakobsson, K Lidén, A Götherström (2015) Ancient mitochondrial DNA from the Northern fringe of the Neolithic farming expansion in Europe sheds light on the dispersion process, Philosophical Transactions of the Royal Society B, 370: 20130373

2014

17. M Raghavan, M DeGiorgio, A Albrechtsen*, I Moltke*, P Skoglund*, TS Korneliussen, B Grønnow, M Appelt, HC Gulløv, TM Friesen, W Fitzhugh, H Malmström, S Rasmussen, J Olsen, L Melchior, BT Fuller, SM Fahrni, T Stafford Jr., V Grimes, MAP Renouf, J Cybulski, N Lynnerup, M Mirazon Lahr, K Britton, R Knecht, J Arneborg, M Metspalu, OE Cornejo, AS Malaspinas, Y Wang, M Rasmussen, V Raghavan, TVO Hansen, E Khusnutdinova, T Pierre, K Dneprovsky, C Andreasen, H Lange, MG Hayes, J Coltrain, VA Spitsyn, A Götherström, L Orlando, T Kivisild, R Villems, MH Crawford, FC Nielsen, J Dissing, J Heinemeier, M Meldgaard, CD Bustamante, DH O’Rourke, M Jakobsson, MTP Gilbert, R Nielsen, E Willerslev, (2014) The genetic prehistory of the New World Arctic, Science, 345:6200 

16. P Skoglund, P Sjödin, T Skoglund, M Lascoux, M Jakobsson, Investigating population history using temporal genetic differentiation, Molecular Biology and Evolution31(9): 2516–2527

15. P Skoglund*, H Malmström*, A Omrak, M Raghavan, C Valdiosera, T Günther, P Hall, K Tambets, J Parik, K-G Sjögren, J Apel, E Willerslev, J Storå, A Götherström, M Jakobsson (2014) Genomic diversity and admixture differs for Stone-Age Scandinavian foragers and farmers, Science, 344:747-750 [data]

14. P Sjödin, P Skoglund, M Jakobsson (2014) Assessing the maximum contribution from ancient populations, Molecular Biology and Evolution, 31(5): 1248-1260.

13. M Rasmussen*, SL Anzick*, MR Waters, P Skoglund, M DeGiorgio, TW Stafford Jr, S Rasmussen, I Moltke, A Albrechtsen, SM Doyle, GD Poznik, V Gudmundsdottir, R Yadav, A-S Sapfo, S Stockton White V, M Allentoft, OE Cornejo, K Tambets, A Eriksson, P Heintzman, M Meiri, M Karmin, T Sand Korneliussen, TL Pierre, J Stenderup, L Saag, V Warmuth, M Cabrita Lopes, RS Malhi, S Brunak, T Sicheritz-Ponten, I Barnes, M Collins, L Orlando, F Balloux, A Manica, R Gupta, M Metspalu, CD Bustamante, M Jakobsson, R Nielsen, E Willerslev (2014) The genome of a Late Pleistocene human from a Clovis burial site in Western Montana, Nature, 506:225–229

12. P Skoglund, BH Northoff, MV Shunkov, A Derevianko, S Pääbo, J Krause, M Jakobsson (2014) Separating ancient DNA from modern contamination in a Siberian Neandertal, PNAS, 111 (6): 2229-2234 [PDF] [PMDtools software]


2013

11. M Raghavan*, P Skoglund*, K Graf, M Metspalu, A Albrechtsen, I Moltke, S Rasmussen, TW Stafford Jr, L Orlando, E Metspalu, M Karmin, K Tambets, S Rootsi, R Mägi, PF Campos, E Balanovska, O Balanovsky, E Khusnutdinova, S Litvinov, LP Osipova, SA Fedorova, MI Veovoda, M DeGiorgio, T Sicheritz-Ponten, S Brunak, S Demeshchenko, T Kivisild, R Villems, R Nielsen, M Jakobsson, E Willerslev, (2014) Upper Palaeolithic Siberian genome reveals the dual ancestry of Native Americans, Nature, 505: 87–91,  Published Online 20 November 2013

PhD Thesis: P Skoglund, (2013) Reconstructing the human past using ancient and modern genomes, Digital Comprehensive Summaries from the Faculty of Science and Technology 1069, [PDF]

10. P Skoglund, J Storå, A Götherström, M Jakobsson (2013) Accurate sex identification of ancient human remains using DNA shotgun sequencing, Journal of Archaeological Science, 40(12):4477-4482 [preprint] [Nature Research Highlight]

9. CM Schlebusch*, P Sjödin*, P Skoglund*, M Jakobsson (2013) Stronger signal of recent selection for lactase persistance in Maasai than in Europeans, European Journal of Human Genetics, 21(5):550-553


2012

8. CM Schlebusch*, P Skoglund*, P Sjödin, LM Gattepaille, S Li, D Hernandez, F Jay, A Singleton, MGB Blum, H Sodyall, M Jakobsson (2012) Genomic variation of seven Khoe-San groups reveals adaptation and complex African history, Science, 338:374-379 [supplement]

7. P Skoglund, H Malmström, M Raghavan, J Storå, P Hall, E Willerslev, MTP Gilbert, A Götherström* & M Jakobsson* (2012) Origins and genetic legacy of Neolithic farmers and hunter-gatherers in Europe. Science, 336:466-469 [pdf] [supplement] [data] [News & Analysis by M. Balter] [Rated '10' by faculty of 1000] [SMBE 2012 poster]

6. V Nyström, J Humphrey, P Skoglund, NJ McKeown, S Vartanyan, PW Shaw, K Lidén, M Jakobsson, I Barnes, A Angerbjörn, A Lister & L Dalén (2012) Microsatellite genotyping reveals end-Pleistocene decline in mammoth autosomal genetic variation, Molecular Ecology, 21:3391-3402 [Perspective by M. Thomas]

5. H Malmström, M Vretemark, A Tillmar, M Brandström-Durling, P Skoglund, MTP Gilbert, E Willerslev, G Holmlund & A Götherström (2012) Finding the founder of Stockholm – a kinship study based on Y-chromosomal, autosomal and mitochondrial DNA, Annals of Anatomy, 194:138-145


2011

4. P Skoglund, M Jakobsson (2011) Archaic human ancestry in East Asia, PNAS, 108:18301-18306

3. S Castroviejo-Fisher*, P Skoglund*, R Valadez, C Vilá & JA Leonard (2011) Vanishing Native American dog lineages, BMC Evolutionary Biology 11:73

2. P Skoglund, A Götherström & M Jakobsson, (2011) Estimation of population divergence times using non-overlapping genomic sequences: examples from dogs and wolves, Molecular Biology and Evolution 28:1505-1517


2010

1. P Skoglund, J Höglund, (2010) Sequence polymorphism in candidate loci for phenotypic differences in winter plumage between Scottish and Scandinavian populations of Willow grouse (Lagopus lagopus), PLoS ONE 5(4): e10334
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