Publications

Natural selection and adaptive traits in the Maniq, a nomadic hunter-gatherer society from Mainland Southeast Asia

Herzog, Tobias; Larena, Maximilian; Kutanan, Wibhu; Lukas, Helmut et al.

Part of Scientific Reports, 2025

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• DOI for Natural selection and adaptive traits in the Maniq, a nomadic hunter-gatherer society from Mainland Southeast Asia
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From the Treatment of the Body to the Places of the Dead

Tõrv, Mari; Peyroteo Stjerna, Rita

Part of Oxford Handbook of Mesolithic Europe, Oxford University Press, 2025

Chapter in book

Joint inference of adaptive and demographic history from temporal population genomic data

Pavinato, Vitor A. C.; De Mita, Stephane; Marin, Jean-Michel; de Navascues, Miguel

Part of Peer Community Journal, 2022

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• DOI for Joint inference of adaptive and demographic history from temporal population genomic data
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Power and limits of selection genome scans on temporal data from a selfing population

de Navascués, Miguel; Becheler, Arnaud; Gay, Laurène; Ronfort, Joëlle et al.

Part of Peer Community Journal, 2021

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• DOI for Power and limits of selection genome scans on temporal data from a selfing population
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Repeated plague infections across six generations of Neolithic Farmers

Seersholm, Frederik Valeur; Sjögren, Karl-Göran; Koelman, Julia; Blank, Malou et al.

Part of Nature, p. 114-121, 2024

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• DOI for Repeated plague infections across six generations of Neolithic Farmers
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DNA-analys av arkeologiska material

Fraser, Magdalena; Malmström, Helena; Svensson, Emma; Storå, Jan

Part of Arkeologi på Gotland 2, p. 43-52, Uppsala universitet, 2017

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A Tale of Two Lakes: Divergent Evolutionary Trajectories of Two Daphnia Populations Experiencing Distinct Environments

Wersebe, Matthew J.; Günther, Torsten; Morton, Philip K.; Weider, Lawrence J. et al.

Part of Ecology and Evolution, 2024

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• DOI for A Tale of Two Lakes: Divergent Evolutionary Trajectories of Two Daphnia Populations Experiencing Distinct Environments
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Forensic autosomal and gonosomal short tandem repeat marker reference database for populations in Burkina Faso

Zeye, Moutanou Modeste Judes; Ouedraogo, Serge Yannick; Bado, Prosper; Zoure, Abdou Azaque et al.

Part of Scientific Reports, 2024

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• DOI for Forensic autosomal and gonosomal short tandem repeat marker reference database for populations in Burkina Faso
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Zuurberg (Eastern Cape, South Africa) revisited: human remains, dating and archaeological findings

Steyn, Maryna; Jolly, Cecile; Schlebusch, Carina; Meyer, Anja

Part of Azania, p. 294-314, 2024

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• DOI for Zuurberg (Eastern Cape, South Africa) revisited: human remains, dating and archaeological findings
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Ethical entanglements: human remains, museums and ethics in a European perspective

Nilsson Stutz, Liv; Peyroteo Stjerna, Rita; Tarlow, Sarah

Part of Antiquity, p. 1-6, 2024

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• DOI for Ethical entanglements: human remains, museums and ethics in a European perspective

The Population History of Domestic Sheep Revealed by Paleogenomes

Kaptan, Damla; Atag, Gözde; Vural, Kivilcim Basak; Morell Miranda, Pedro et al.

Part of Molecular biology and evolution, 2024

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• DOI for The Population History of Domestic Sheep Revealed by Paleogenomes
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The Oxford Handbook of Mesolithic Europe

Nilsson Stutz, Liv; Peyroteo Stjerna, Rita; Tõrv, Mari

Oxford University Press, 2025

Collection (editor)

BaTwa populations from Zambia retain ancestry of past hunter-gatherer groups

Breton, Gwenna; Barham, Lawrence; Mudenda, George; Soodyall, Himla et al.

Part of Nature Communications, 2024

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• DOI for BaTwa populations from Zambia retain ancestry of past hunter-gatherer groups
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An Improved Chromosome-scale Genome Assembly and Population Genetics resource for Populus tremula

Robinson, Kathryn M.; Schiffthaler, Bastian; Liu, Hui; Rydman, Sara M. et al.

Part of Physiologia Plantarum, 2024

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• DOI for An Improved Chromosome-scale Genome Assembly and Population Genetics resource for Populus tremula
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Sex estimation using long bones in the largest burial site of the Copper Age: Linear discriminant analysis and random forest

Díaz-Navarro, S.; Díez-Hermano, S.; Rojo-Guerra, M. A.; Maurandi, J. Lomba et al.

Part of Journal of Archaeological Science, 2024

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• DOI for Sex estimation using long bones in the largest burial site of the Copper Age: Linear discriminant analysis and random forest
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Investigating African population structure using genomes and proteomes

Lankheet, Imke Tara

2024

Doctoral thesis, comprehensive summary

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Maternal histories of sub-Saharan Africa revealed through sequencing of complete mitochondrial genomes

Lankheet, Imke; Chowdhury, Afifa; Tellgren-Roth, Christian; Jolly, Cécile et al.

Manuscript (preprint)

Y chromosome diversity and geographical patterns in sub-Saharan Africa

Lankheet, Imke; Chowdhury, Afifa; Jolly, Cécile; Green, Susanne T. et al.

Manuscript (preprint)

Ancient proteins and the deepest population divergence among modern human populations

Lankheet, Imke; Oskolkov, Nikolay; Mirabello, Claudio; Mtetwa, Ezekia et al.

Manuscript (preprint)

READv2: advanced and user-friendly detection of biological relatedness in archaeogenomics

Alacamli, Erkin; Naidoo, Thijessen; Guler, Merve N.; Saglican, Ekin et al.

Part of Genome Biology, 2024

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• DOI for READv2: advanced and user-friendly detection of biological relatedness in archaeogenomics
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Human genetic structure in Northwest France provides new insights into West European historical demography

Alves, Isabel; Giemza, Joanna; Blum, Michael G. B.; Bernhardsson, Carolina et al.

Part of Nature Communications, 2024

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• DOI for Human genetic structure in Northwest France provides new insights into West European historical demography
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Population Genomic History of the Endangered Anatolian and Cyprian Mouflons in Relation to Worldwide Wild, Feral, and Domestic Sheep Lineages

Atag, Gözde; Kaptan, Damla; Yüncü, Eren; Vural, Kivilcim Basak et al.

Part of Genome Biology and Evolution, 2024

Article in journal

• DOI for Population Genomic History of the Endangered Anatolian and Cyprian Mouflons in Relation to Worldwide Wild, Feral, and Domestic Sheep Lineages
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Whole-genome resequencing facilitates the development of a 50K single nucleotide polymorphism genotyping array for Scots pine (Pinus sylvestris L.) and its transferability to other pine species

Barcala, Maximiliano Estravis; van der Valk, Tom; Chen, Zhiqiang; Funda, Tomas et al.

Part of The Plant Journal, p. 944-955, 2024

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• DOI for Whole-genome resequencing facilitates the development of a 50K single nucleotide polymorphism genotyping array for Scots pine (Pinus sylvestris L.) and its transferability to other pine species
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Germline mutation rate is elevated in young and old parents in Caenorhabditis remanei

Chen, Hwei-yen; Krieg, Therese; Mautz, Brian; Jolly, Cecile et al.

Part of Evolution Letters, p. 478-489, 2023

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• DOI for Germline mutation rate is elevated in young and old parents in Caenorhabditis remanei
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The genetic changes that shaped Neandertals, Denisovans, and modern humans

Zeberg, Hugo; Jakobsson, Mattias; Paabo, Svante

Part of Cell, p. 1047-1058, 2024

Article, review/survey

• DOI for The genetic changes that shaped Neandertals, Denisovans, and modern humans

Identification of microbial pathogens in Neolithic Scandinavian humans

Bergfeldt, Nora; Kirdök, Emrah; Oskolkov, Nikolay; Mirabello, Claudio et al.

Part of Scientific Reports, 2024

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• DOI for Identification of microbial pathogens in Neolithic Scandinavian humans
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Strong Purifying Selection in Haploid Tissue-Specific Genes of Scots Pine Supports the Masking Theory

Cervantes, Sandra; Kesalähti, Robert; Kumpula, Timo A.; Mattila, Tiina M. et al.

Part of Molecular biology and evolution, 2023

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• DOI for Strong Purifying Selection in Haploid Tissue-Specific Genes of Scots Pine Supports the Masking Theory
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Eurasian back-migration into Northeast Africa was a complex and multifaceted process

Hammarén, Rickard; Goldstein, Steven T.; Schlebusch, Carina

Part of PLOS ONE, 2023

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• DOI for Eurasian back-migration into Northeast Africa was a complex and multifaceted process
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The genetic legacy of the expansion of Bantu-speaking peoples in Africa

Fortes-Lima, Cesar A.; Burgarella, Concetta; Hammarén, Rickard; Eriksson, Anders et al.

Part of Nature, p. 540-547, 2024

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• DOI for The genetic legacy of the expansion of Bantu-speaking peoples in Africa
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Transformation of the Scandinavian hunter-fisher-gatherer population throughout the Mesolithic

Kashuba, Natalija; Bernhardsson, Carolina; Boethius, Adam; Fraser, Magdalena et al.

Manuscript (preprint)

Metagenomic analysis of Mesolithic chewed pitch reveals poor oral health among stone age individuals

Kirdök, Emrah; Kashuba, Natalija; Damlien, Hege; Manninen, Mikael A. et al.

Part of Scientific Reports, 2024

Article in journal

• DOI for Metagenomic analysis of Mesolithic chewed pitch reveals poor oral health among stone age individuals
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Going local with ancient DNA: A review of human histories from regional perspectives

Avila-Arcos, Maria C.; Raghavan, Maanasa; Schlebusch, Carina

Part of Science, p. 53-58, 2023

Article, review/survey

• DOI for Going local with ancient DNA: A review of human histories from regional perspectives

Polymorphic parasitic larvae cooperate to build swimming colonies luring hosts

Krupenko, Darya; Miroliubov, Aleksei; Kryukov, Emil; Faure, Louis et al.

Part of Current Biology, p. 4524-4531, 2023

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• DOI for Polymorphic parasitic larvae cooperate to build swimming colonies luring hosts
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The ancestry and geographical origins of St Helena's liberated Africans

Sandoval-Velasco, Marcela; Jagadeesan, Anuradha; Ramos-Madrigal, Jazmin; Avila-Arcos, Maria C. et al.

Part of American Journal of Human Genetics, p. 1590-1599, 2023

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• DOI for The ancestry and geographical origins of St Helena's liberated Africans
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Ancient Sheep Genomes reveal four Millennia of North European Short-Tailed Sheep in the Baltic Sea region

Larsson, Martin N. A.; Morell Miranda, Pedro; Pan, Li; Başak Vural, Kıvılcım et al.

Part of Genome Biology and Evolution, 2024

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• DOI for Ancient Sheep Genomes reveal four Millennia of North European Short-Tailed Sheep in the Baltic Sea region
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Demographic reconstruction of the Western sheep expansion from whole-genome sequences

Morell Miranda, Pedro; Soares, André E. R.; Günther, Torsten

Part of G3, 2023

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• DOI for Demographic reconstruction of the Western sheep expansion from whole-genome sequences
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Following the herd: Population genetics of European sheep in time and space

Morell Miranda, Pedro

2023

Doctoral thesis, comprehensive summary

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Ancient genomes reveal 7000 years of interconnected Demographic History between Sheep and Humans in Iberia.

Morell Miranda, Pedro; Galindo-Pellicena, Maria Ángeles; Mereu, Paolo; Iriarte, Eneko et al.

Manuscript (preprint)

Matrilineal phylogeography of wild and feral sheep from the Mediterranean and the Middle East

Mereu, Paolo; Pirastru, Monica; Morell Miranda, Pedro; Atag, Gözde et al.

Manuscript (preprint)

Epigenomic Modifications in Modern and Ancient Genomes

Niiranen, Laura; Leciej, Dawid; Edlund, Hanna; Bernhardsson, Carolina et al.

Part of Genes, 2022

Article, review/survey

• DOI for Epigenomic Modifications in Modern and Ancient Genomes
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Iron age genomic data from Althiburos - Tunisia renew the debate on the origins of African taurine cattle

Ginja, Catarina; Guimaraes, Silvia; da Fonseca, Rute R.; Rasteiro, Rita et al.

Part of iScience, 2023

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• DOI for Iron age genomic data from Althiburos - Tunisia renew the debate on the origins of African taurine cattle
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Patrilocality and hunter-gatherer-related ancestry of populations in East-Central Europe during the Middle Bronze Age

Chylenski, Maciej; Makarowicz, Przemyslaw; Juras, Anna; Krzewinska, Maja et al.

Part of Nature Communications, 2023

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• DOI for Patrilocality and hunter-gatherer-related ancestry of populations in East-Central Europe during the Middle Bronze Age
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Genetic continuity, isolation, and gene flow in Stone Age Central and Eastern Europe

Mattila, Tiina M.; Svensson, Emma M.; Juras, Anna; Günther, Torsten et al.

Part of Communications Biology, 2023

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• DOI for Genetic continuity, isolation, and gene flow in Stone Age Central and Eastern Europe
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Places of shared narratives: The Mesolithic burial grounds in the Tagus and Sado valleys, Portugal

Peyroteo Stjerna, Rita

Part of Stones, p. 100-107, Uppsala University, 2023

Chapter in book

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Demographic history and genetic structure in pre-Hispanic Central Mexico

Villa-Islas, Viridiana; Izarraras-Gomez, Alan; Larena, Maximilian; Perez Campos, Elizabeth Mejia et al.

Part of Science, 2023

Article in journal

• DOI for Demographic history and genetic structure in pre-Hispanic Central Mexico

Genetic structure and characteristics of Tibetan chickens

Li, Shijun; Zhang, Xiaojian; Dong, Xinyu; Guo, Ruiyang et al.

Part of Poultry Science, 2023

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• DOI for Genetic structure and characteristics of Tibetan chickens
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Northwest African Neolithic initiated by migrants from Iberia and Levant

Simões, Luciana G.; Günther, Torsten; Martínez-Sánchez, Rafael M.; Vera-Rodríguez, Juan Carlos et al.

Part of Nature, p. 550-556, 2023

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• DOI for Northwest African Neolithic initiated by migrants from Iberia and Levant
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African Farmers, Not Stone Age Foragers: Reassessment of Human Remains from the Mumbwa Caves, Zambia

Steyn, Maryna; Meyer, Anja; Peyroteo-Stjerna, Rita; Jolly, Cecile et al.

Part of African Archaeological Review, p. 53-72, 2023

Article in journal

• DOI for African Farmers, Not Stone Age Foragers: Reassessment of Human Remains from the Mumbwa Caves, Zambia

Interdisciplinary analyses of the remains from three gallery graves at Kinnekulle: tracing Late Neolithic and Early Bronze Age societies in inland Southwestern Sweden

Blank, Malou; Tornberg, Anna; Sjögren, Karl-Göran; Knipper, Corina et al.

Part of Archaeological and Anthropological Sciences, 2023

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• DOI for Interdisciplinary analyses of the remains from three gallery graves at Kinnekulle: tracing Late Neolithic and Early Bronze Age societies in inland Southwestern Sweden
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Imputed genomes and haplotype-based analyses of the Picts of early medieval Scotland reveal fine-scale relatedness between Iron Age, early medieval and the modern people of the UK

Morez, Adeline; Britton, Kate; Noble, Gordon; Günther, Torsten et al.

Part of PLOS Genetics, 2023

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• DOI for Imputed genomes and haplotype-based analyses of the Picts of early medieval Scotland reveal fine-scale relatedness between Iron Age, early medieval and the modern people of the UK
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