Recent Department Publications
Last update: May 16th, 2021
2021
Bokelmann, L., Nickel, O., Maricic, T., Pääbo, S., Meyer, M., Borte, S., & Riesenberg, S. (2021). Point-of-care bulk testing for SARS-CoV-2 by combining hybridization capture with improved colorimetric LAMP. Nature Communications, 12(1): 1467. | |
Choin, J., Mendoza-Revilla, J., Arauna, L. R., Cuadros-Espinoza, S., Cassar, O., Larena, M., Ko, A.-M.-S., Harmant, C., Laurent, R., Verdu, P., Laval, G., Boland, A., Olaso, R., Deleuze, J.-F., Valentin, F., Ko, Y.-C., Jakobsson, M., Gessain, A., Excoffier, L., Stoneking, M., Patin, E., & Quintana-Murci, L. (2021). Genomic insights into population history and biological adaptation in Oceania. Nature, 592(7855), 583-589. | |
Devièse, T., Abrams, G., Hajdinjak, M., Pirson, S., De Groote, I., Di Modica, K., Toussaint, M., Fischer, V., Comeskey, D., Spindler, L., Meyer, M., Semal, P., & Higham, T. (2021). Reevaluating the timing of Neanderthal disappearance in Northwest Europe. Proceedings of the National Academy of Sciences, 118(12): e2022466118. | |
Hajdinjak, M., Mafessoni, F., Skov, L., Vernot, B., Hübner, A., Fu, Q., Essel, E., Nagel, S., Nickel, B., Richter, J., Moldovan, O. T., Constantin, S., Endarova, E., Zahariev, N., Spasov, R., Welker, F., Smith, G. M., Sinet-Mathiot, V., Paskulin, L., Fewlass, H., Talamo, S., Rezek, Z., Sirakova, S., Sirakov, N., McPherron, S. P., Tsanova, T., Hublin, J.-J., Peter, B., Meyer, M., Skoglund, P., Kelso, J., & Pääbo, S. (2021). Initial Upper Palaeolithic humans in Europe had recent Neanderthal ancestry. Nature, 592, 253-257. | |
Hou, Q.-Q., Xiao, Q., Sun, X.-Y., Ju, X.-C., & Luo, Z.-G. (2021). TBC1D3 promotes neural progenitor proliferation by suppressing the histone methyltransferase G9a. Science Advances, 7: eaba8053. | |
Le Duc, D., Hentschel, J., Neuser, S., Stiller, M., Meier, C., Jäger, E., Abou Jamra, R., Platzer, K., Monecke, A., Ziemer, M., Markovic, A., Bläker, H., & Lemke, J. R. (2021). In cis TP53 and RAD51C pathogenic variants may predispose to sebaceous gland carcinomas. European Journal of Human Genetics, 29, 489-494. | |
Mora-Bermúdez, F., Taverna, E., & Huttner, W. B. (2021). From stem and progenitor cells to neurons in the developing neocortex: Key differences among hominids (advance online). The FEBS Journal. | |
Pugach, I., Hübner, A., Hung, H.-c., Meyer, M., Carson, M. T., & Stoneking, M. (2021). Ancient DNA from Guam and the peopling of the Pacific. Proceedings of the National Academy of Sciences, 118(1): e202211211. | |
Reinscheid, R. K., Mafessoni, F., Lüttjohann, A., Jüngling, K., Pape, H.-C., & Schulz, S. (2021). Neandertal introgression and accumulation of hypomorphic mutations in the neuropeptide S (NPS) system promote attenuated functionality. Peptides, 138: 170506. | |
Schörnig, M., Ju, X.-C., Fast, L., Weigert, A., Schaffer, T., Ebert, S., Treutlein, B., Kasri, N. N., Peter, B., Hevers, W., & Taverna, E. (2021). Comparison of induced neurons reveals slower structural and functional maturation in humans than in apes. eLife, 10: e59323. | |
Troitzsch, D., Zhang, H., Dittmann, S., Düsterhöft, D., Möller, T. A., Michel, A.-M., Jänsch, L., Riedel, K., Borrero-de Acuña, J. M., Jahn, D., & Sievers, S. (2021). A point mutation in the transcriptional repressor PerR results in a constitutive oxidative stress response in Clostridioides difficile 630Δerm. mSphere, 6(2): e00091-21. | |
Vernot, B., Zavala, E. I., Gómez-Olivencia, A., Jacobs, Z., Slon, V., Mafessoni, F., Romagné, F., Pearson, A., Petr, M., Sala, N., Pablos, A., Aranburu, A., de Castro, J. M. B., Carbonell, E., Li, B., Krajcarz, M. T., Krivoshapkin, A. I., Kolobova, K. A., Kozlikin, M. B., Shunkov, M. V., Derevianko, A. P., Viola, B., Grote, S., Essel, E., López Herráez, D., Nagel, S., Nickel, B., Richter, J., Schmidt, A., Peter, B., Kelso, J., Roberts, R. G., Arsuaga, J.-L., & Meyer, M. (2021). Unearthing Neanderthal population history using nuclear and mitochondrial DNA from cave sediments. Science, eabf1667. | |
Zeberg, H., & Pääbo, S. (2021). A genomic region associated with protection against severe COVID-19 is inherited from Neandertals. Proceedings of the National Academy of Sciences, 118(9): e2026309118. |
Open Access2020
Bajic, V. (2020). New approaches to investigating sex-biased admixture in southern African populations. PhD Thesis, Universität Leipzig, Leipzig. | |
Balzeau, A., Turq, A., Talamo, S., Daujeard, C., Guérin, G., Welker, F., Crevecoeur, I., Fewlass, H., Hublin, J.-J., Lahaye, C., Maureille, B., Meyer, M., Schwab, C., & Gómez-Olivencia, A. (2020). Pluridisciplinary evidence for burial for the La Ferrassie 8 Neandertal child. Scientific Reports, 10: 21230. | |
Bokelmann, L. (2020). Development of methods for the characterization and retrieval of damaged DNA from ancient biological material. PhD Thesis, Universität Leipzig, Leipzig. | |
Bokelmann, L., Glocke, I., & Meyer, M. (2020). Reconstructing double-stranded DNA fragments on a single-molecule level reveals patterns of degradation in ancient samples. Genome Research, 30(10), 1449-1457. | |
Braadbaart, F., Reidsma, F., Roebroeks, W., Chiotti, L., Slon, V., Meyer, M., Théry-Parisot, I., van Hoesel, A., Nierop, K., Kaal, J., van Os, B., & Marquer, L. (2020). Heating histories and taphonomy of ancient fireplaces: A multi-proxy case study from the Upper Palaeolithic sequence of Abri Pataud (Les Eyzies-de-Tayac, France). Journal of Archaeological Science: Reports, 33: 102468. | |
Cauret, C. M. S., Gansauge, M.-T., Tupper, A. S., Furman, B. L. S., Knytl, M., Song, X., Greenbaum, E., Meyer, M., & Evans, B. J. (2020). Developmental systems drift and the drivers of sex chromosome evolution. Molecular Biology and Evolution, 37(3), 799-808. | |
Dannemann, M., He, Z., Heide, C., Vernot, B., Sidow, L., Kanton, S., Weigert, A., Treutlein, B., Pääbo, S., Kelso, J., & Camp, J. G. (2020). Human stem cell resources are an inroad to Neandertal DNA functions. Stem Cell Reports, 15, 214-225. | |
Evans, B. J., Gansauge, M.-T., Tocheri, M. W., Schillaci, M. A., Sutikna, T., Jatmiko, Saptomo, E. W., Klegarth, A., Tosi, A. J., Melnick, D. J., & Meyer, M. (2020). Mitogenomics of macaques (Macaca) across Wallace's Line in the context of modern human dispersals. Journal of Human Evolution, 146: 102852. | |
Fellows Yates, J. A., Andrades Valtueña, A., Vågene, A. J., Cribdon, B., Velsko, I. M., Borry, M., Bravo-López, M. J., Fernandez-Guerra, A., Green, E. J., Ramachandran, S. L., Heintzman, P. D., Spyrou, M. A., Hübner, A., Gancz, A. S., Hider, J., Allshouse, A. F., & Warinner, C. G. (2020). Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir. Scientific Data, 8: 31. | |
Gansauge, M.-T., Aximu-Petri, A., Nagel, S., & Meyer, M. (2020). Manual and automated preparation of single-stranded DNA libraries for the sequencing of DNA from ancient biological remains and other sources of highly degraded DNA. Nature Protocols, 15, 2279-2300. | |
Gunnarsdottir, E. D., & Stoneking, M. (2020). Genetic Landscape of Present-Day Hunter-Gatherer Groups. In T. Güldemann ( | |
He, Z., Brazovskaja, A., Ebert, S., Camp, J. G., & Treutlein, B. (2020). CSS: Cluster similarity spectrum integration of single-cell genomics data. Genome Biology, 21: 224. | |
Hublin, J.-J., Sirakov, N., Aldeias, V., Bailey, S., Bard, E., Delvigne, V., Endarova, E., Fagault, Y., Fewlass, H., Hajdinjak, M., Kromer, B., Krumov, I., Marreiros, J., Martisius, N. L., Paskulin, L., Sinet-Mathiot, V., Meyer, M., Pääbo, S., Popov, V., Rezek, Z., Sirakova, S., Skinner, M. M., Smith, G. M., Spasov, R., Talamo, S., Tuna, T., Wacker, L., Welker, F., Wilcke, A., Zahariev, N., McPherron, S. P., & Tsanova, T. (2020). Initial Upper Palaeolithic Homo sapiens from Bacho Kiro Cave, Bulgaria. Nature, 581(7808), 299-302. | |
Hübner, A. (2020). Exploring aspects of tissue specificity of human mtDNA heteroplasmy. PhD Thesis, Universität, Leipzig. | |
Kanton, S., Treutlein, B., & Camp, J. G. (2020). Single-cell genomic analysis of human cerebral organoids. In J. R. Spence ( | |
Key, F. M., Posth, C., Esquivel-Gomez, L. R., Hübler, R., Spyrou, M. A., Neumann, G. U., Furtwängler, A., Sabin, S., Burri, M., Wissgot, A., Lankapalli, A. K., Vågene, Å. J., Meyer, M., Nagel, S., Tukhbatova, R., Khokhlov, A., Chizhevsky, A., Hansen, S., Belinsky, A. B., Kalmykov, A., Kantorovich, A. R., Maslov, V. E., Stockhammer, P. W., Vai, S., Zavattaro, M., Riga, A., Caramelli, D., Skeates, R., Beckett, J., Gradoli, M. G., Steuri, N., Hafner, A., Ramstein, M., Siebke, I., Lösch, S., Erdal, Y. S., Alikhan, N.-F., Zhou, Z., Achtman, M., Bos, K., Reinhold, S., Haak, W., Kühnert, D., Herbig, A., & Krause, J. (2020). Emergence of human-adapted Salmonella enterica is linked to the Neolithization process. Nature Ecology & Evolution, 4, 324-333. | |
Khan, N., de Manuel, M., Peyrégne, S., Do, R., Prüfer, K., Marques-Bonet, T., Varki, N., Gagneux, P., & Varki, A. (2020). Multiple Genomic Events Altering Hominin SIGLEC Biology and Innate Immunity Predated the Common Ancestor of Humans and Archaic Hominins. Genome Biology and Evolution, 12(7), 1040-1050. | |
Khrameeva, E., Kurochkin, I., Han, D., Guijarro, P., Kanton, S., Santel, M., Qian, Z., Rong, S., Mazin, P., Sabirov, M., Bulat, M., Efimova, O., Tkachev, A., Guo, S., Sherwood, C. C., Camp, J. G., Pääbo, S., Treutlein, B., & Khaitovich, P. (2020). Single-cell-resolution transcriptome map of human, chimpanzee, bonobo, and macaque brains. Genome Research, 30(5), 776-789. | |
Kutanan, W., Shoocongdej, R., Srikummool, M., Hübner, A., Suttipai, T., Srithawong, S., Kampuansai, J., & Stoneking, M. (2020). Cultural variation impacts paternal and maternal genetic lineages of the Hmong-Mien and Sino-Tibetan groups from Thailand. European Journal of Human Genetics, 28, 1563-1579. | |
Lang, P. L. M., Weiß, C. L., Kersten, S., Latorre, S. M., Nagel, S., Nickel, B., Meyer, M., & Burbano, H. A. (2020). Hybridization ddRAD-sequencing for population genomics of nonmodel plants using highly degraded historical specimen DNA. Molecular Ecology Resources, 20(5), 1228-1247. | |
Le Duc, D., Lin, C.-C., Popkova, Y., Yang, Z., Akhil, V., Çakir, M. V., Grunewald, S., Simon, J.-C., Dietz, A., Dannenberger, D., Garten, A., Lemke, J. R., Schiller, J., Blüher, M., Nankam, N., Arielle, P., Rolle-Kampczyk, U., von Bergen, M., Kelso, J., & Schöneberg, T. (2020). Reduced lipolysis in lipoma phenocopies lipid accumulation in obesity. International Journal of Obesity. | |
Liu, D., Duong, N. T., Ton, N. D., Van Phong, N., Pakendorf, B., Van Hai, N., & Stoneking, M. (2020). Extensive Ethnolinguistic Diversity in Vietnam Reflects Multiple Sources of Genetic Diversity. Molecular Biology and Evolution, 37(9), 2503-2519. | |
Liu, D., Duong, N. T., Ton, N. D., Van Phong, N., Pakendorf, B., Van Hai, N., & Stoneking, M. (2020). Extensive ethnolinguistic diversity in Vietnam reflects multiple sources of genetic diversity. Molecular Biology and Evolution, 37(9): msaa099, pp. 2503-2519. | |
Mafessoni, F., Grote, S., de Filippo, C., Slon, V., Kolobova, K. A., Viola, B., Markin, S. V., Chintalapati, M., Peyrégne, S., Skov, L., Skoglund, P., Krivoshapkin, A. I., Derevianko, A. P., Meyer, M., Kelso, J., Peter, B., Prüfer, K., & Pääbo, S. (2020). A high-coverage Neandertal genome from Chagyrskaya Cave. Proceedings of the National Academy of Sciences, 117(26), 15132-15136. | |
Maricic, T., Nickel, O., Ayinuer-Petri, A., Essel, E., Gansauge, M.-T., Kanis, P., Macak, D., Riesenberg, S., Bokelmann, L., Zeberg, H., Meyer, M., Borte, S., & Pääbo, S. (2020). A direct RT-qPCR approach to test large numbers of individuals for SARS-CoV-2. PLoS One, 15(12): e0244824. | |
Massilani, D., Skov, L., Hajdinjak, M., Gunchinsuren, B., Tseveendorj, D., Yi, S., Lee, J., Nagel, S., Nickel, B., Devièse, T., Higham, T., Meyer, M., Kelso, J., Peter, B., & Pääbo, S. (2020). Denisovan ancestry and population history of early East Asians. Science, 370(6516), 579-583. | |
Miller, A. J., Yu, Q., Czerwinski, M., Tsai, Y.-H., Conway, R. F., Wu, A., Holloway, E. M., Walker, T., Glass, I. A., Treutlein, B., Camp, J. G., & Spence, J. R. (2020). In vitro and in vivo development of the human airway at single-cell resolution. Developmental Cell, 53(1): e6, pp. 117-128. | |
Mitina, A., Mazin, P., Vanyushkina, A., Anikanov, N., Mair, W., Guo, S., & Khaitovich, P. (2020). Lipidome analysis of milk composition in humans, monkeys, bovids, and pigs. BMC Evolutionary Biology, 20(70). | |
Ou, M.-Y., Ju, X.-C., Cai, Y.-J., Sun, X.-Y., Wang, J.-F., Fu, X.-Q., Sun, Q., & Luo, Z.-G. (2020). Heterogeneous nuclear ribonucleoprotein A3 controls mitotic progression of neural progenitors via interaction with cohesin. Development, 147: dev185132. | |
Parker, E. C., Rohrlach, A. B., Friederich, S., Nagel, S., Meyer, M., Krause, J., Bos, K. I., & Haak, W. (2020). A systematic investigation of human DNA preservation in medieval skeletons. Scientific Reports, 10(1): 18225. | |
Pedro, N., Brucato, N., Fernandes, V., André, M., Saag, L., Pomat, W., Besse, C., Boland, A., Deleuze, J.-F., Clarkson, C., Sudoyo, H., Metspalu, M., Stoneking, M., Cox, M. P., Leavesley, M., Pereira, L., & Ricaut, F.-X. (2020). Papuan mitochondrial genomes and the settlement of Sahul. Journal of Human Genetics, 65(875), 887. | |
Peter, B. M., Petkova, D., & Novembre, J. (2020). Genetic landscapes reveal how human genetic diversity aligns with geography. Molecular Biology and Evolution, 37(4), 943-951. | |
Petr, M., Hajdinjak, M., Fu, Q., Essel, E., Rougier, H., Crevecoeur, I., Semal, P., Golovanova, L. V., Doronichev, V. B., Lalueza-Fox, C., de la Rasilla, M., Rosas, A., Shunkov, M. V., Kozlikin, M. B., Derevianko, A. P., Vernot, B., Meyer, M., & Kelso, J. (2020). The evolutionary history of Neanderthal and Denisovan Y chromosomes. Science, 369(6511), 1653-1656. | |
Peyrégne, S. (2020). Tracing the ancestral roots of Neandertals. The Science Breaker, 6(1). | |
Peyrégne, S., & Peter, B. M. (2020). AuthentiCT: A model of ancient DNA damage to estimate the proportion of present-day DNA contamination. Genome Biology, 21: 246. | |
Peyrégne, S., & Prüfer, K. (2020). Present-Day DNA contamination in ancient DNA datasets. BioEssays, 42: 2000081. | |
Picin, A., Hajdinjak, M., Nowaczewska, W., Benazzi, S., Urbanowski, M., Marciszak, A., Fewlass, H., Socha, P., Stefaniak, K., Żarski, M., Wiśniewski, A., Hublin, J.-J., Nadachowski, A., & Talamo, S. (2020). New perspectives on Neanderthal dispersal and turnover from Stajnia Cave (Poland). Scientific Reports, 10: 14778. | |
Romandini, M., Gregorio, O., Bortolini, E., Peyrégne, S., Delpiano, D., Nava, A., Panetta, D., Domenico, G. D., Martini, P., Arrighi, S., Badino, F., Figus, C., Lugli, F., Marciani, G., Silvestrini, S., Sartorio, J. C. M., Terlato, G., Hublin, J.-J., Meyer, M., Bondioli, L., Higham, T., Slon, V., Peresani, M., & Benazzi, S. (2020). A late Neanderthal tooth from northeastern Italy. Journal of Human Evolution, 147: 102867. | |
Semo, A., Gayà-Vidal, M., Fortes-Lima, C., Alard, B., Oliveira, S., Almeida, J., Prista, A., Damasceno, A., Fehn, A., Schlebusch, C., & Rocha, J. (2020). Along the Indian Ocean coast: genomic variation in Mozambique provides new insights into the Bantu expansion. Molecular Biology and Evolution, 37(2), 406-416. | |
Skov, L., Macià, M. C., Sveinbjörnsson, G., Mafessoni, F., Lucotte, E. A., Einarsdóttir, M. S., Jonsson, H., Halldorsson, B., Gudbjartsson, D. F., Helgason, A., Schierup, M. H., & Stefansso, K. (2020). The nature of Neanderthal introgression revealed by 27,566 Icelandic genomes. Nature, 582, 78-83. | |
Srithawong, S., Muisuk, K., Srikummool, M., Kampuansai, J., Pittayaporn, P., Ruangchai, S., Liu, D., & Kutanan, W. (2020). Close genetic relationship between central Thai and Mon people in Thailand revealed by autosomal microsatellites. International Journal of Legal Medicine. | |
Telford, M., Hughes, D. A., Juan, D., Stoneking, M., Navarro, A., & Santpere, G. (2020). Expanding the Geographic Characterisation of Epstein–Barr Virus Variation through Gene-Based Approaches. Microorganisms, 8: 1686. | |
Voiculescu, S. E., Le Duc, D., Rosca, A. E., & Zagrean, A.-M. (2020). The pineal gland development and its physiology in fetus and neonate. In C. S. Kovacs, & C. L. Deal ( | |
Weiß, C. L., Gansauge, M.-T., Aximu-Petri, A., Meyer, M., & Burbano, H. A. (2020). Mining ancient microbiomes using selective enrichment of damaged DNA molecules. BMC Genomics, 21: 432. | |
Yang, M. A., Fan, X., Sun, B., Chen, C., Lang, J., Ko, Y.-C., Tsang, C.-h., Chiu, H., Wang, T., Bao, Q., Wu, X., Hajdinjak, M., Ko, A.-M.-S., Ding, M., Cao, P., Yang, R., Liu, F., Nickel, B., Dai, Q., Feng, X., Zhang, L., Sun, C., Ning, C., Zeng, W., Zhao, Y., Zhang, M., Gao, X., Cui, Y., Reich, D., Stoneking, M., & Fu, Q. (2020). Ancient DNA indicates human population shifts and admixture in northern and southern China. Science, 369(6501), 282-288. | |
Zeberg, H., & Pääbo, S. (2020). The major genetic risk factor for severe COVID-19 is inherited from Neanderthals. Nature, 587(7835), 610-612. | |
Zeberg, H., Dannemann, M., Sahlholm, K., Tsuo, K., Maricic, T., Wiebe, V., Hevers, W., Robinson, H. P., Kelso, J., & Pääbo, S. (2020). A Neandertal sodium channel increases pain sensitivity in present-day humans. Current Biology, 30(17), 3465-3469. | |
Zeberg, H., Kelso, J., & Pääbo, S. (2020). The Neandertal progesterone receptor. Molecular Biology and Evolution, 37(9): msaa119, pp. 2655-2660. | |
Zhang, D., Xia, H., Chen, F., Li, B., Slon, V., Cheng, T., Yang, R., Jacobs, Z., Dai, Q., Massilani, D., Shen, X., Wang, J., Feng, X., Cao, P., Yang, M. A., Yao, J., Yang, J., Madsen, D. B., Han, Y., Ping, W., Liu, F., Perreault, C., Chen, X., Meyer, M., Kelso, J., Pääbo, S., & Fu, Q. (2020). Denisovan DNA in Late Pleistocene sediments from Baishiya Karst Cave on the Tibetan Plateau. Science, 370(6516), 584-587. |
2019
Barbieri, C., Barquera, R., Arias, L., Sandoval, J. R., Acosta, O., Zurita, C., Aguilar-Campos, A., Tito-Álvarez, A. M., Serrano-Osuna, R., Gray, R. D., Mafessoni, F., Heggarty, P., Shimizu, K. K., Fujita, R., Stoneking, M., Pugach, I., & Fehren-Schmitz, L. (2019). The current genomic landscape of Western South America: Andes, Amazonia, and Pacific Coast. Molecular Biology and Evolution, msz174. | |
Bokelmann, L., Hajdinjak, M., Peyrégne, S., Brace, S., Essel, E., de Filippo, C., Glocke, I., Grote, S., Mafessoni, F., Nagel, S., Kelso, J., Prüfer, K., Vernot, B., Barnes, I., Pääbo, S., Meyer, M., & Stringer, C. (2019). A genetic analysis of the Gibraltar Neanderthals. Proceedings of the National Academy of Sciences, 116(31), 15610-15615. | |
Bozek, K., Khrameeva, E. E., Reznick, J., Omerbašić, D., Bennett, N. C., Lewin, G. R., Azpurua, J., Gorbunova, V., Seluanov, A., Regnard, P., Wanert, F., Marchal, J., Pifferi, F., Aujard, F., Liu, Z., Shi, P., Pääbo, S., Schröder, F., Willmitzer, L., Giavalisco, P., & Khaitovich, P. (2019). Publisher Correction: Lipidome determinants of maximal lifespan in mammals. Scientific Reports, 9(1): 6972. | |
Brazovskaja, A., Treutlein, B., & Camp, J. G. (2019). High-throughput single-cell transcriptomics on organoids. Current Opinion in Biotechnology, 55, 167-171. | |
Brucato, N., Fernandes, V., Kusuma, P., Černý, V., Mulligan, C. J., Soares, P., Rito, T., Besse, C., Boland, A., Deleuze, J.-F., Cox, M. P., Sudoyo, H., Stoneking, M., Pereira, L., & Ricaut, F.-X. (2019). Evidence of Austronesian Genetic Lineages in East Africa and South Arabia: Complex Dispersal from Madagascar and Southeast Asia. Genome Biology and Evolution, 11(3), 748-758. | |
Bücking, R., Cox, M. P., Hudjashov, G., Saag, L., Sudoyo, H., & Stoneking, M. (2019). Archaic mitochondrial DNA inserts in modern day nuclear genomes. BMC Genomics, 20: 1017. | |
Dabney, J., & Meyer, M. (2019). Extraction of highly degraded DNA from ancient bones and teeth. In B. Shapiro, A. Barlow, P. D. Heintzman, M. Hofreiter, J. L. A. Paijmans, & A. E. R. Soares ( | |
Dannemann, M. (2019). Der Neandertaler in uns. BIOspektrum, 25(5), 497-499. | |
Devièse, T., Massilani, D., Yi, S., Comeskey, D., Nagel, S., Nickel, B., Ribechini, E., Lee, J., Tseveendorj, D., Gunchinsuren, B., Meyer, M., Pääbo, S., & Higham, T. (2019). Compound-specific radiocarbon dating and mitochondrial DNA analysis of the Pleistocene hominin from Salkhit Mongolia. Nature Communications, 10(10): 274. | |
Douka, K., Brown, S., Higham, T., Pääbo, S., Derevianko, A., & Shunkov, M. (2019). FINDER project: collagen fingerprinting (ZooMS) for the identification of new human fossils. Antiquity, 93(367): e1. | |
Douka, K., Slon, V., Jacobs, Z., Ramsey, C. B., Shunkov, M. V., Derevianko, A. P., Mafessoni, F., Kozlikin, M. B., Li, B., Grün, R., Comeskey, D., Devièse, T., Brown, S., Viola, B., Kinsley, L., Buckley, M., Meyer, M., Roberts, R. G., Pääbo, S., Kelso, J., & Higham, T. (2019). Age estimates for hominin fossils and the onset of the Upper Palaeolithic at Denisova Cave. Nature, 565(7741), 640-644. | |
Drukewitz, S. H., Bokelmann, L., Undheim, E. A. B., & von Reumont, B. M. (2019). Toxins from scratch? Diverse, multimodal gene origins in the predatory robber fly Dasypogon diadema indicate a dynamic venom evolution in dipteran insects. GigaScience, 8(7): giz081. | |
Drukewitz, S. H., Jauss, R.-T., Bokelmann, L., & von Reumont, B. M. (2019). The complete mitochondrial genome of the hymenopteran hunting robber fly Dasypogon diadema. Mitochondrial DNA Part B, 4(1), 1584-1585. | |
Evans, B. J., Gansauge, M.-T., Stanley, E. L., Furman, B. L. S., Cauret, C. M. S., Ofori-Boateng, C., Gvoždík, V., Streicher, J. W., Greenbaum, E., Tinsley, R. C., Meyer, M., & Blackburn, D. C. (2019). Xenopus fraseri: Mr. Fraser, where did your frog come from? PLoS One, 14(9): e0220892. | |
Ezra, D., Hershkovitz, I., Salame, K., Alperovitch-Najenson, D., & Slon, V. (2019). Osteophytes in the Cervical Vertebral Bodies (C3–C7)—Demographical Perspectives. The Anatomical Record, 302(2), 226-231. | |
Ezra, D., Slon, V., Kedar, E., Masharawi, Y., Salame, K., Alperovitch‐Najenson, D., & Hershkovitz, I. (2019). The torg ratio of C3–C7 in African Americans and European Americans: A skeletal study. Clinical Anatomy, 32(1), 84-89. | |
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Gerber, T. (2019). Dissecting limb regeneration and cancer heterogeneity using single-cell RNA-seq. PhD Thesis, Universität, Leipzig. | |
Giner-Delgado, C., Villatoro, S., Lerga-Jaso, J., Gayà-Vidal, M., Oliva, M., Castellano, D., Pantano, L., Bitarello, B. D., Izquierdo, D., Noguera, I., Olalde, I., Delprat, A., Blancher, A., Lalueza-Fox, C., Esko, T., O’Reilly, P. F., Andrés, A. M., Ferretti, L., Puig, M., & Cáceres, M. (2019). Evolutionary and functional impact of common polymorphic inversions in the human genome. Nature Communications, 10(4222). | |
Glocke, I. (2019). Improving methods for the extraction of DNA from ancient bones, teeth and sediments. PhD Thesis, Universität, Leipzig. | |
Gunz, P., Tilot, A. K., Wittfeld, K., Teumer, A., Shapland, C. Y., van Erp, T. G. M., Dannemann, M., Vernot, B., Neubauer, S., Guadalupe, T., Fernández, G., Brunner, H. G., Enard, W., Fallon, J., Hosten, N., Völker, U., Profico, A., Di Vincenzo, F., Manzi, G., Kelso, J., St. Pourcain, B., Hublin, J.-J., Franke, B., Pääbo, S., Macciardi, F., Grabe, H. J., & Fisher, S. E. (2019). Neandertal introgression sheds light on modern human endocranial globularity. Current Biology, 29(1), 120-127.e5. | |
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Hübner, A., Wachsmuth, M., Schröder, R., Li, M., Eis-Hübinger, A. M., Madea, B., & Stoneking, M. (2019). Sharing of heteroplasmies between human liver lobes varies across the mtDNA genome. Scientific Reports, 9: 11219. | |
Jacobs, G. S., Hudjashov, G., Saag, L., Kusuma, P., Darusallam, C. C., Lawson, D. J., Mondal, M., Pagani, L., Ricaut, F.-X., Stoneking, M., Metspalu, M., Sudoyo, H., Lansing, J. S., & Cox, M. P. (2019). Multiple deeply divergent Denisovan ancestries in Papuans. Cell, 117(4), 1010-1021. | |
Kanton, S. (2019). Dissecting human cortical development, evolution and malformation using organoids and single-cell transcriptomics. PhD Thesis, Universität, Leipzig. | |
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Klein, A. M., & Treutlein, B. (2019). Single cell analyses of development in the modern era. Development, 146(12): dev181396. | |
Korlević, P., & Meyer, M. (2019). Pretreatment: Removing DNA contamination from ancient bones and teeth using sodium hypochlorite and phosphate. In B. Shapiro, A. Barlow, P. D. Heintzman, M. Hofreiter, J. L. A. Paijmans, & A. E. R. Soares ( | |
Kutanan, W., Kampuansai, J., Srikummool, M., Brunelli, A., Ghirotto, S., Arias, L., Macholdt, E., Hübner, A., Schröder, R., & Stoneking, M. (2019). Contrasting paternal and maternal genetic histories of Thai and Lao populations. Molecular Biology and Evolution, 36(7): msz083, pp. 1490-1506. | |
Laval, G., Peyrégne, S., Zidane, N., Harmant, C., Renaud, F., Patin, E., Prugnolle, F., & Quintana-Murci, L. (2019). Recent adaptive acquisition by African rainforest hunter-gatherers of the late Pleistocene sickle-cell mutation suggests past differences in malaria exposure. The American Journal of Human Genetics, 104(3), 553-561. | |
Macholdt, E., Arias, L., Duong, N. T., Ton, N. D., Van Phong, N., Schröder, R., Pakendorf, B., Van Hai, N., & Stoneking, M. (2019). The paternal and maternal genetic history of Vietnamese populations. European Journal of Human Genetics, 28(5), 636-645. | |
Mafessoni, F. (2019). Encounters with archaic hominins. Nature Ecology and Evolution, 3, 14-15. | |
Mafessoni, F., & Lachmann, M. (2019). The complexity of understanding others as the evolutionary origin of empathy and emotional contagion. Scientific Reports, 9: 5794. | |
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Nersisyan, L., Nikoghosyan, M., Arakelyan, A., Genome of the Netherlands Consortium, including authors, Stoneking, M., Li, M., & others (2019). WGS-based telomere length analysis in Dutch family trios implicates stronger maternal inheritance and a role for RRM1 gene. Scientific Reports, 9: 18758. | |
Oliveira, S., Hübner, A., Fehn, A.-M., Aço, T., Lages, F., Pakendorf, B., Stoneking, M., & Rocha, J. (2019). The role of matrilineality in shaping patterns of Y chromosome and mtDNA sequence variation in southwestern Angola. European Journal of Human Genetics, 27, 475-483. | |
Pääbo, S. (2019). Lessons from our inner Neanderthal: How extinct hominins live on in people today; the genomes of now-extinct archaic humans can help us understand more about what makes us modern-day humans truly unique. In S. Shuzhen, & B. Seet ( | |
Parra, R. G., Papadopoulos, N., Ahumada-Arranz, L., El Kholtei, J., Mottelson, N., Horokhovsky, Y., Treutlein, B., & Soeding, J. (2019). Reconstructing complex lineage trees from scRNA-seq data using MERLoT. Nucleic Acids Research, 47(17), 8961-8974. | |
Petr, M., Pääbo, S., Kelso, J., & Vernot, B. (2019). Limits of long-term selection against Neandertal introgression. Proceedings of the National Academy of Sciences, 116(5), 1639-1644. | |
Petr, M., Vernot, B., & Kelso, J. (2019). admixr – R package for reproducible analyses using ADMIXTOOLS. Bioinformatics, 35(17): btz030, pp. 3194-3195. | |
Peyrégne, S. (2019). Investigating deep human evolutionary and population history using archaic human genomes. PhD Thesis, Universität, Leipzig. | |
Peyrégne, S., Slon, V., Mafessoni, F., de Filippo, C., Hajdinjak, M., Nagel, S., Nickel, B., Essel, E., Le Cabec, A., Wehrberger, K., Conard, N. J., Kind, C. J., Posth, C., Krause, J., Abrams, G., Bonjean, D., Di Modica, K., Toussaint, M., Kelso, J., Meyer, M., Pääbo, S., & Prüfer, K. (2019). Nuclear DNA from two early Neandertals reveals 80,000 years of genetic continuity in Europe. Science Advances, 5(6): eaaw5873. | |
Reher, D., Key, F. M., Andrés, A. M., & Kelso, J. (2019). Immune gene diversity in archaic and present-day humans. Genome Biology and Evolution, 11(1), 232-241. | |
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Schmidt, J., de Manuel, M., Marques-Bonet, T., Castellano, S., & Andrés, A. M. (2019). The impact of genetic adaptation on chimpanzee subspecies differentiation. PLOS Genetics, 15(11), 1-32. | |
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Shull, G., Haffner, C., Huttner, W. B., Kodandaramaiah, S. B., & Taverna, E. (2019). Robotic platform for microinjection into single cells in brain tissue. EMBO reports, 20(10): e47880. | |
Shvetsova, E., Sofronova, A., Monajemi, R., Gagalova, K., Draisma, H. H. M., White, S. J., Santen, G. W. E., Chuva de Sousa Lopes, S. M., Heijmans, B. T., van Meurs, J., Jansen, R., Franke, L., Kielbasa, S. M., den Dunnen, J. T., ´t Hoen, P. A. C., BIOS consortium, GoNL consortium, including authors, Li, M., Stoneking, M., & & others (2019). Skewed X-inactivation is common in the general female population. European Journal of Human Genetics, 27, 455-465. | |
Slon, V., & Pääbo, S. (2019). Rendezvous in der Steinzeit. In Highlights 2018 aus dem Jahrbuch der Max-Planck-Gesellschaft (pp. 32-34). München: Max-Planck-Gesellschaft zur Förderung der Wissenschaften e. V. | |
Spataru, A., Le Duc, D., Zagrean, L., & Zagrean, A.-M. (2019). Ethanol exposed maturing rat cerebellar granule cells show impaired energy metabolism and increased cell death after oxygen-glucose deprivation. Neural Regeneration Research, 14(3), 485-490. | |
Swift, J. A., Bunce, M., Dortch, J., Douglass, K., Faith, J. T., Fellow Jates, J. A., Field, J., Haberle, S. G., Jacob, E., Johnson, C. N., Lindsey, E., Lorenzen, E. D., Louys, J., Miller, G., Mychajliw, A. M., Slon, V., Villavicencio, N. A., Waters, M. R., Welker, F., Wood, R., Petraglia, M. D., Boivin, N., & Roberts, P. (2019). Micro methods for megafauna: novel approaches to late quaternary extinctions and their contributions to faunal conservation in the anthropocene. Bioscience, 69(11): biz105, pp. 877-887. | |
Taverna, E., & Huttner, W. B. (2019). The Golgi apparatus in polarized neuroepithelial stem cells and their progeny: Canonical and noncanonical features. In M. Kloc ( | |
Tkachev, A., Stepanova, V., Zhang, L., Khrameeva, E., Zubkov, D., Giavalisco, P., & Khaitovich, P. (2019). Differences in lipidome and metabolome organization of prefrontal cortex among human populations. Scientific Reports, 9: 18348. | |
Tyshkovskiy, A., Bozaykut, P., Borodinova, A. A., Gerashchenko, M. V., Ables, G. P., Garratt, M., Khaitovich, P., Clish, C. B., Miller, R. A., & Gladyshev, V. N. (2019). Identification and application of gene expression signatures associated with lifespan extension. Cell Metabolism, 30(3): e8, pp. 573-593. | |
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2018
Arias Alvis, L. (2018). Human population history of Northwestern Amazonia, Colombia. PhD Thesis, Univ., Leipzig. | |
Arias, L., Barbieri, C., Barreto, G., Stoneking, M., & Pakendorf, B. (2018). High-resolution mitochondrial DNA analysis sheds light on human diversity, cultural interactions, and population mobility in Northwestern Amazonia. American Journal of Physical Anthropology, 165(2), 238-255. | |
Arias, L., Schröder, R., Hübner, A., Barreto, G., Stoneking, M., & Pakendorf, B. (2018). Cultural innovations influence patterns of genetic diversity in Northwestern Amazonia. Molecular Biology and Evolution, 35(11), 2719-2735. | |
Ayabe, H., Anada, T., Kamoya, T., Sato, T., Kimura, M., Yoshizawa, E., Kikuchi, S., Ueno, Y., Sekine, K., Camp, J. G., Treutlein, B., Ferguson, A., Suzuki, O., Takebe, T., & Taniguchi, H. (2018). Optimal hypoxia regulates human iPSC-derived liver bud differentiation through intercellular TGFB signaling. Stem Cell Reports, 11(2), 306-316. | |
Bajic, V., Barbieri, C., Hübner, A., Güldemann, T., Naumann, C., Gerlach, L., Berthold, F., Nakagawa, H., Mpoloka, S. W., Roewer, L., Purps, J., Stoneking, M., & Pakendorf, B. (2018). Genetic structure and sex‐biased gene flow in the history of southern African populations. American Journal of Physical Anthropology, 167(3): 23694, pp. 656-671. | |
Barlow, A., Cahill, J. A., Hartmann, S., Theunert, C., Xenikoudakis, G., Fortes, G. G., Paijmans, J. L. A., Rabeder, G., Frischauf, C., Grandal-d’Anglade, A., García-Vázquez, A., Murtskhvaladze, M., Saarma, U., Anijalg, P., Skrbinšek, T., Bertorelle, G., Gasparian, B., Bar-Oz, G., Pinhasi, R., Slatkin, M., Dalén, L., Shapiro, B., & Hofreiter, M. (2018). Partial genomic survival of cave bears in living brown bears. Nature Ecology & Evolution, 2, 1563-1570. | |
Battlay, P., Leblanc, P. B., Green, L., Garud, N. R., Schmidt, J., Fournier-Level, A., & Robin, C. (2018). Structural variants and selective sweep Foci contribute to insecticide resistance in the Drosophila genetic reference panel. G3: Genes, Genomes, Genetics, 8(11), 3489-3497. | |
Bitarello, B. D., de Filippo, C., Teixeira, J. C., Schmidt, J. M., Kleinert, P., Meyer, D., & Andrés, A. M. (2018). Signatures of long-term balancing selection in human genomes. Genome Biology and Evolution, 10(3), 939-955. | |
Brucato, N., Fernandes, V., Mazières, S., Kusuma, P., Cox, M. P., Ng’ang’a, J. W., Omar, M., Simeone-Senelle, M.-C., Frassati, C., Alshamali, F., Fin, B., Boland, A., Deleuze, J.-F., Stoneking, M., Adelaar, A., Crowther, A., Boivin, N., Pereira, L., Bailly, P., Chiaroni, J., & Ricaut, F.-X. (2018). The Comoros show the earliest Austronesian gene flow into the Swahili corridor. The American Journal of Human Genetics, 102(1), 58-68. | |
Camp, J. G., Wollny, D., & Treutlein, B. (2018). Single-cell genomics to guide human stem cell and tissue engineering. Nature Methods, 15(9), 661-667. | |
Chintalapati, M. (2018). Indels and large scale variation in archaic hominins compared to present day humans. PhD Thesis, Universität, Leipzig. | |
Dannemann, M., & Racimo, F. (2018). Something old, something borrowed: Admixture and adaptation in human evolution. Current Opinion in Genetics & Development, 53, 1-8. | |
de Filippo, C., Meyer, M., & Prüfer, K. (2018). Quantifying and reducing spurious alignments for the analysis of ultra-short ancient DNA sequences. BMC Biology, 16: 121. | |
Duong, N. T., Macholdt, E., Ton, N. D., Arias, L., Schröder, R., Phong, N. V., Thuy, V. T. B., Ha, N. H., Hue, H. T. T., Xuan, N. T., Oanh, K. T. P., Hien, L. T. T., Hoang, N. H., Pakendorf, B., Stoneking, M., & Hai, N. V. (2018). Complete human mtDNA genome sequences from Vietnam and the phylogeography of Mainland Southeast Asia. Scientific Reports, 8: 11651. | |
Fast, L. (2018). Analysis of neuron structure in humans and apes. Master Thesis, Universität, Leipzig. | |
Fei, J.-F., Lou, W.-P.-K., Knapp, D., Murawala, P., Gerber, T., Taniguchi, Y., Nowoshilow, S., Khattak, S., & Tanaka, E. M. (2018). Application and optimization of CRISPR–Cas9-mediated genome engineering in axolotl ( Ambystoma mexicanum ). Nature Protocols, 13, 2908-2943. | |
Gayk, Z. G., Le Duc, D., Horn, J., & Lindsay, A. R. (2018). Genomic insights into natural selection in the common loon (Gavia immer): evidence for aquatic adaptation. BMC Evolutionary Biology, 18: 64. | |
Gerber, T., Murawala, P., Knapp, D., Masselink, W., Schuez, M., Hermann, S., Gac-Santel, M., Nowoshilow, S., Kageyama, J., Khattak, S., Currie, J. D., Camp, J. G., Tanaka, E. M., & Treutlein, B. (2018). Single-cell analysis uncovers convergence of cell identities during axolotl limb regeneration. Science, 362(6413): eaaq0681. | |
Hajdinjak, M. (2018). The Middle to Upper Paleolithic transition in Europe: Studies of ancient DNA from early modern humans and late Neandertals. PhD Thesis, Universität, Leipzig. | |
Hajdinjak, M., Fu, Q., Hübner, A., Petr, M., Mafessoni, F., Grote, S., Skoglund, P., Narasimham, V., Rougier, H., Crevecoeur, I., Semal, P., Soressi, M., Talamo, S., Hublin, J.-J., Gušic, I., Kucan, Ž., Rudan, P., Golovanova, L. V., Doronichev, V. B., Posth, C., Krause, J., Korlevic, P., Nagel, S., Nickel, B., Slatkin, M., Patterson, N., Reich, D., Prüfer, K., Meyer, M., Pääbo, S., & Kelso, J. (2018). Reconstructing the genetic history of late Neanderthals. Nature, 555(7698), 652-656. | |
He, Z., & Yu, Q. (2018). Identification and characterization of functional modules reflecting transcriptome transition during human neuron maturation. BMC Genomics, 19: 262. | |
Heide, M., Huttner, W. B., & Mora-Bermúdez, F. (2018). Brain organoids as models to study human neocortex development and evolution. Current Opinion in Cell Biology, 55, 8-16. | |
Helm, C., Beckers, P., Bartolomaeus, T., Drukewitz, S. H., Kourtesis, I., Weigert, A., Purschke, G., Worsaae, K., Struck, T. H., & Bleidorn, C. (2018). Convergent evolution of the ladder-like ventral nerve cord in Annelida. Frontiers in Zoology, 15: 36. | |
Henne, K., Schilling, H., Stoneking, M., Conrads, G., & Horz, H.-P. (2018). Sex-specific differences in the occurrence of Fusobacterium nucleatum subspecies and Fusobacterium periodonticum in the oral cavity. Oncotarget, 9(29), 20631-20639. | |
Hernandez-Rodriguez, J., Arandjelovic, M., Lester, J. D., de Filippo, C., Weihmann, A., Meyer, M., Angedakin, S., Casals, F., Navarro, A., Vigilant, L., Kühl, H. S., Langergraber, K., Boesch, C., Hughes, D., & Marques-Bonet, T. (2018). The impact of endogenous content, replicates and pooling on genome capture from faecal samples. Molecular Ecology Resources, 18(2), 319-333. | |
Hershkovitz, I., & Slon, V. (2018). Levantine fossil record. In W. Trevathan ( | |
Hu, H., Liu, J.-M., Hu, Z., Jiang, X., Yang, X., Li, J., Zhang, Y., Yu, H., & Khaitovich, P. (2018). Recently evolved tumor suppressor transcript TP73-AS1 functions as sponge of human-specific miR-941. Molecular Biology and Evolution, 35(5), 1063-1077. | |
Kageyama, J., Wollny, D., Treutlein, B., & Camp, J. G. (2018). ShinyCortex: Exploring single-cell transcriptome data from the developing human cortex. Frontiers in Neuroscience, 12: 315. | |
Kanis, P. (2018). Screening for high cleavage Cas9 to improve CRISPR genome editing. Master Thesis, Universität, Leipzig. | |
Karow, M., Camp, J. G., Falk, S., Gerber, T., Pataskar, A., Gac-Santel, M., Kageyama, J., Brazovskaja, A., Garding, A., Fan, W., Riedemann, T., Casamassa, A., Smiyakin, A., Schichor, C., Goetz, M., Tiwari, V. K., Treutlein, B., & Berninger, B. (2018). Direct pericyte-to-neuron reprogramming via unfolding of a neural stem cell-like program. Nature Reviews Neurology, 21, 932-940. | |
Key, F. M., Abdul-Aziz, M. A., Mundry, R., Peter, B. M., Sekar, A., D'Amato, M., Dennis, M. Y., Schmidt, J. M., & Andrés, A. M. (2018). Human local adaptation of the TRPM8 cold receptor along a latitudinal cline. PLoS Genetics, 14(5): e1007298. | |
Khrameeva, E., Kurochkin, I., Bozek, K., Giavalisco, P., & Khaitovich, P. (2018). Lipidome Evolution in Mammalian Tissues. Molecular Biology and Evolution, 35(8), 1947-1957. | |
Klotz, B., Kneitz, S., Regensburger, M., Hahn, L., Dannemann, M., Kelso, J., Nickel, B., Lu, Y., Boswell, W., Postlethwait, J., Warren, W., Kunz, M., Walter, R. B., & Schartl, M. (2018). Expression signatures of early-stage and advanced medaka melanomas. Comparative Biochemistry and Physiology Part C: Toxicology & Pharmacology, 208, 20-28. | |
Kolora, S. R. R., Weigert, A., Saffari, A., Kehr, S., Walter Costa, M. B., Spröer, C., Indrischek, H., Chintalapati, M., Lohse, K., Doose, G., Overmann, J., Bunk, B., Bleidorn, C., Grimm-Seyfarth, A., Henle, K., Nowick, K., Faria, R., Stadler, P. F., & Schlegel, M. (2018). Divergent evolution in the genomes of closely related lacertids, Lacerta viridis and L. bilineata, and implications for speciation. GigaScience, 8(2): giy160. | |
Korlević, P. (2018). Development of sample preparation techniques for the molecular analysis of ancient skeletal remains. PhD Thesis, Universität, Leipzig. | |
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Zhang, B., Han, D., Korostelev, Y., Yan, Z., Shao, N., Khrameeva, E., Velichkovsky, B. M., Chen, Y.-P.-P., Gelfand, M. S., & Khaitovich, P. (2016). Changes in snoRNA and snRNA abundance in the human, chimpanzee, macaque, and mouse brain. Genome Biology and Evolution, 8(3), 840-850. |
2015
Aguado, M. T., Glasby, C. J., Schroeder, P. C., Weigert, A., & Bleidorn, C. (2015). The making of a branching annelid: An analysis of complete mitochondrial genome and ribosomal data of Ramisyllis multicaudata. Scientific Reports, 5: 12072. | |
Alter, S. E., Meyer, M., Post, K., Czechowski, P., Gravlund, P., Gaines, C., Rosenbaum, H. C., Kaschner, K., Turvey, S. T., van der Plicht, J., Shapiro, B., & Hofreiter, M. (2015). Climate impacts on transocean dispersal and habitat in gray whales from the Pleistocene to 2100. Molecular Ecology, 24(7), 1510-1522. | |
Benazzi, S., Slon, V., Talamo, S., Negrino, F., Peresani, M., Bailey, S. E., Sawyer, S., Panetta, D., Vicino, G., Starnini, E., Mannino, M. A., Salvadori, P. A., Meyer, M., Pääbo, S., & Hublin, J.-J. (2015). The makers of the Protoaurignacian and implications for Neandertal extinction. Science, 348(6236), 793-796. | |
Bozek, K., Wei, Y., Yan, Z., Liu, X., Xiong, J., Sugimoto, M., Tomita, M., Pääbo, S., Sherwood, C. C., Hof, P. R., Ely, J. J., Li, Y., Steinhauser, D., Willmitzer, L., Giavalisco, P., & Khaitovich, P. (2015). Organization and evolution of brain lipidome revealed by large-scale analysis of human, chimpanzee, macaque, and mouse tissues. Neuron, 85(4), 695-702. | |
Cahill, J. A., Stirling, I., Kistler, L., Salamzade, R., Ersmark, E., Fulton, T. L., Stiller, M., Green, R. E., & Shapiro, B. (2015). Genomic evidence of geographically widespread effect of gene flow from polar bears into brown bears. Molecular Ecology, 24(6), 1205-1217. | |
Camp, J. G., Badsha, F., Florio, M., Kanton, S., Gerber, T., Wilsch-Bräuninger, M., Lewitus, E., Sykes, A., Hevers, W., Lancaster, M., Knoblich, J. A., Lachmann, R., Pääbo, S., Huttner, W. B., & Treutlein, B. (2015). Human cerebral organoids recapitulate gene expression programs of fetal neocortex development. Proceedings of the National Academy of Sciences of the United States of America, 112(51), 15672-15677. | |
Cao, Q., Didelot, X., Wu, Z., Li, Z., He, L., Li, Y., Ni, M., You, Y., Lin, X., Li, Z., Gong, Y., Zheng, M., Zhang, M., Liu, J., Wang, W., Bo, X., Falush, D., Wang, S., & Zhang, J. (2015). Progressive genomic convergence of two Helicobacter pylori strains during mixed infection of a patient with chronic gastritis. Gut, 64(4), 554-561. | |
de Boer, M., Tzur, S., van Leeuwen, K., Dencher, P. C., Skorecki, K., Wolach, B., Gavrieli, R., Nasidze, I., Stoneking, M., Tanck, M. W., & Roos, D. (2015). A founder effect for p47phoxTrp193Ter chronic granulomatous disease in Kavkazi Jews. Blood Cells, Molecules, and Diseases, 55(4), 320-327. | |
Fanti, S. D., Barbieri, C., Sarno, S., Sevini, F., Vianello, D., Tamm, E., Metspalu, E., van Oven, M., Hübner, A., Sazzini, M., Franceschi, C., Pettener, D., & Luiselli, D. (2015). Fine dissection of human mitochondrial DNA haplogroup HV lineages reveals paleolithic signatures from European glacial refugia. PLoS One, 10(12): e0144391. | |
Florio, M., Albert, M., Taverna, E., Namba, T., Brandl, H., Lewitus, E., Haffner, C., Sykes, A., Wong, F. K., Peters, J., Guhr, E., Klemroth, S., Prüfer, K., Kelso, J., Naumann, R., Nüsslein, I., Dahl, A., Lachmann, R., Pääbo, S., & Huttner, W. B. (2015). Human-specific gene ARHGAP11B promotes basal progenitor amplification and neocortex expansion. Science, 347(6229), 1465-1470. | |
Frantz, L. A., Schraiber, J. G., Madsen, O., Megens, H.-J., Cagan, A., Bosse, M., Paudel, Y., Crooijmans, R. P., Groenen, G. L., & Groenen, M. A. (2015). Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes. Nature Genetics, 47(10), 1141-1148. | |
Fu, Q., Hajdinjak, M., Moldovan, O., Constantin, S., Mallick, S., Skoglund, P., Patterson, N., Rohland, N., Lazaridis, I., Nickel, B., Viola, B., Prüfer, K., Meyer, M., Kelso, J., Reich, D., & Pääbo, S. (2015). An early modern human from Romania with a recent Neanderthal ancestor. Nature, 524(7564), 216-219. | |
Germonpré, M., Sablin, M. V., Láznicková-Galetová, M., Després, V., Stevens, R. E., Stiller, M., & Hofreiter, M. (2015). Palaeolithic dogs and Pleistocene wolves revisited: A reply to Morey (2014). Journal of Archaeological Science, 54, 210-216. | |
Haak, W., Lazaridis, I., Patterson, N., Rohland, N., Mallick, S., Llamas, B., Brandt, G., Nordenfelt, S., Harney, E., Stewardson, K., Fu, Q., Mittnik, A., Bánffy, E., Economou, C., Francken, M., Friederich, S., Pena, R. G., Hallgren, F., Khartanovich, V., Khokhlov, A., Kunst, M., Kuznetsov, P., Meller, H., Mochalov, O., Moiseyev, V., Nicklisch, N., Pichler, S. L., Risch, R., Guerra, M. A. R., Roth, C., Szécsényi-Nagy, A., Wahl, J., Meyer, M., Krause, J., Brown, D., Anthony, D., Cooper, A., Alt, K. W., & Reich, D. (2015). Massive migration from the steppe was a source for Indo-European languages in Europe. Nature, (522), 207-211. | |
Hammerschmidt, K., Schreiweis, C., Minge, C., Pääbo, S., Fischer, J., & Enard, W. (2015). A humanized version of Foxp2 does not affect ultrasonic vocalization in adult mice. Genes, Brain and Behavior, 14(8), 583-590. | |
Heyne, H. (2015). Genetic influences on brain gene expression in rats selected for tameness and aggression. PhD Thesis, Univ., Leipzig. | |
Hopfe, C. (2015). Untersuchung der Eignung verschiedener archäologischer Materialien für die Gewinnung von alter DNA. Master Thesis, Universität, Leipzig. | |
Hughes, D. A., Kircher, M., He, Z., Guo, S., Fairbrother, G. L., Moreno, C. S., Khaitovich, P., & Stoneking, M. (2015). Evaluating intra- and inter-individual variation in the human placental transcriptome. Genome Biology, 16: 54. | |
Korlevic, P., Gerber, T., Gansauge, M.-T., Hajdinjak, M., Nagel, S., Ayinuer-Petri, A., & Meyer, M. (2015). Reducing microbial and human contamination in DNA extractions from ancient bones and teeth. Biotechniques, 59(2), 87-93. | |
Kuhlwilm, M. (2015). Population history of Neandertals and functional analysis of human-specific changes. PhD Thesis, Univ., Leipzig. | |
Le Duc, D. (2015). De novo genome assembly of the kiwi (apteryx mantelli) provides insight into nocturnal adaptation. PhD Thesis, Univ., Leipzig. | |
Le Duc, D., Renaud, G., Krishnan, A., Almén, M. S., Huynen, L., Prohaska, S. J., Ongyerth, M., Bitarello, B. D., Schiöth, H. B., Hofreiter, M., Stadler, P. F., Prüfer, K., Lambert, D., Kelso, J., & Schöneberg, T. (2015). Kiwi genome provides insights into evolution of a nocturnal lifestyle. Genome Biology, 16: 147. | |
Li, M., Schröder, R., Ni, S., Madea, B., & Stoneking, M. (2015). Extensive tissue-related and allele-related mtDNA heteroplasmy suggests positive selection for somatic mutations. Proceedings of the National Academy of Sciences of the United States of America, 112(8), 2491-2496. | |
Macholdt, E., Slatkin, M., Pakendorf, B., & Stoneking, M. (2015). New insights into the history of the C-14010 lactase persistence variant in Eastern and Southern Africa. American Journal of Physical Anthropology, 156(4), 661-664. | |
MacLarnon, A. M., Sommer, V., Goffe, A. S., Higham, J. P., Lodge, E., Tkaczynski, P. J., & Ross, C. (2015). Assessing adaptability and reactive scope: Introducing a new measure and illustrating its use through a case study of environmental stress in forest-living baboons. General and Comparative Endocrinology, 215, 10-24. | |
Mafessoni, F. (2015). Limits in selection, from populations to cognition. PhD Thesis, Universität, Leipzig. | |
Mafessoni, F., & Lachmann, M. (2015). Selective strolls: Fixation and extinction in diploids are slower for weakly selected mutations than for neutral ones. Genetics, 201(4), 1581-1589. | |
Nogueiro, I., Teixeira, J. C., Amorim, A., Gusmão, L., & Alvarez, L. (2015). Portuguese crypto-Jews: The genetic heritage of a complex history. Frontiers in Genetics, 6: 12. | |
Nogueiro, I., Teixeira, J. C., Amorim, A., Gusmão, L., & Alvarez, L. (2015). Reply to letter from Felice L. Bedford and Doron Yacobi. European journal of human genetics, 23(8), 994-995. | |
Nogueiro, I., Teixeira, J., Amorim, A., Gusmão, L., & Alvarez, L. (2015). Echoes from Sepharad: Signatures on the maternal gene pool of crypto-Jewish descendants. European Journal of Human Genetics, 23, 693-699. | |
Pääbo, S. (2015). Dorcas Cummings Lecture: The Genetic Legacy of Neanderthals. In T. Grodzicker, D. Stewart, & B. Stillman ( | |
Pääbo, S. (2015). Genomy drevnich gominin iz Sibiri = Genomes of ancient hominins from Siberia. In Vestnik Rossijskoj Akademii Nauk 85 (10): Doklady Laureatov Bol'shoj Zolotoj Medali imeni M. V. Lomonosova Rossijskoj Akademii Nauk 2014 goda (pp. 879-884). Moscow: Nauka. | |
Pääbo, S. (2015). The contribution of ancient hominin genomes from Siberia to our understanding of human evolution. In Herald of the Russian Academy of Sciences 85 (5): Papers by Laureates of the 2014 Lomonosov Grand Gold Medal of the Russian Academy of Sciences (pp. 392-396). Moscow: IAPC «Nauka/Interperiodica». | |
Pääbo, S. (2015). The diverse origins of the human gene pool (Commentary). Nature Reviews Genetics, 16, 313-314. | |
Palamara, P. F., Francioli, L. C., Wilton, P. R., Genovese, G., Gusev, A., Finucane, H. K., Sankararaman, S., Genome of the Netherlands Consortium, including authors, Stoneking, M., Li, M., & others, Sunyaev, S. R., de Bakker, P. I., Wakeley, J., Pe’er, I., & Price, A. L. (2015). Leveraging distant relatedness to quantify human mutation and gene-conversion rates. The American Journal of Human Genetics, 97(6), 775-789. | |
Prüfer, K., & Meyer, M. (2015). Comment on “Late Pleistocene human skeleton and mtDNA link Paleoamericans and modern Native Americans”. Science, 347(6224), 835-835. | |
Pugach, I., & Stoneking, M. (2015). Genome-wide insights into the genetic history of human populations. Investigative Genetics, 6: 6. | |
Qin, P., & Stoneking, M. (2015). Denisovan Ancestry in East Eurasian and Native American Populations. Molecular Biology and Evolution, 32(10), 2665-2674. | |
Renaud, G., Slon, V., Duggan, A. T., & Kelso, J. (2015). Schmutzi: Estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA. Genome Biology, 16: 224. | |
Renaud, G., Stenzel, U., Maricic, T., Wiebe, V., & Kelso, J. (2015). deML: Robust demultiplexing of Illumina sequences using a likelihood-based approach. Bioinformatics, 31(5), 770-772. | |
Ronke, C., Dannemann, M., Halbwax, M., Fischer, A., Helmschrodt, C., Brügel, M., André, C., Atencia, R., Mugisha, L., Scholz, M., Ceglarek, U., Thiery, J., Pääbo, S., Prüfer, K., & Kelso, J. (2015). Lineage-specific changes in biomarkers in great apes and humans. PLoS One, 10(8): e0134548. | |
Savage, P. E., Matsumae, H., Oota, H., Stoneking, M., Currie, T. E., Tajima, A., Gillan, M., & Brown, S. (2015). How 'circumpolar' is Ainu music? Musical and genetic perspectives on the history of the Japanese archipelago. Ethnomusicology Forum, 24(3), 443-467. | |
Sawyer, S. (2015). Insights into Neandertals and Denisovans from Denisova cave. PhD Thesis, Univ., Leipzig. | |
Sawyer, S., Renaud, G., Viola, B., Hublin, J.-J., Gansauge, M.-T., Shunkov, M. V., Derevianko, A. P., Prüfer, K., Kelso, J., & Pääbo, S. (2015). Nuclear and mitochondrial DNA sequences from two Denisovan individuals. Proceedings of the National Academy of Sciences of the United States of America, 112(51), 15696-15700. | |
Strehlow, V., Heyne, H. O., & Lemke, J. R. (2015). The spectrum of GRIN2A-associated disorders. Epileptologie, 32(3), 147-151. | |
Struck, T. H., Golombek, A., Weigert, A., Franke, F. A., Westheide, W., Purschke, G., Bleidorn, C., & Halanych, K. M. (2015). The evolution of annelids reveals two adaptive routes to the interstitial realm. Current Biology, 25(15), 1993-1999. | |
Teixeira, J. C., de Filippo, C., Weihmann, A., Meneu, J. R., Racimo, F., Dannemann, M., Nickel, B., Fischer, A., Halbwax, M., Andre, C., Atencia, R., Meyer, M., Parra, G., Pääbo, S., & Andrés, A. M. (2015). Long-term balancing selection in LAD1 maintains a missense trans-species polymorphism in humans, chimpanzees and bonobos. Molecular Biology and Evolution, 32(5), 1186-1196. | |
Valverde, G., Zhou, H., Lippold, S., de Filippo, C., Tang, K., Herráez, D. L., Li, J., & Stoneking, M. (2015). A novel candidate region for genetic adaptation to high altitude in Andean populations. PLoS One, 10(5): e0125444. | |
van Leeuwen, E. M., Kanterakis, A., Deelen, P., Kattenberg, M. V., The Genome the Netherlands Consortium, including authors, Stoneking, M., Li, M., & others, Slagboom, P. E., de Bakker, P. I., Wijmenga, C., Swertz, M. A., Boomsma, D. I., van Duijn, C. M., Karrsen, L. C., & Hottenga, J. J. (2015). Population-specific genotype imputations using minimac or IMPUTE2. Nature Protocols, 10(9), 1285-1296. | |
van Leeuwen, E. M., Karssen, L. C., Deelen, J., Isaacs, A., Medina-Gomez, C., Mbarek, H., Kanterakis, A., Trompet, S., Postmus, I., Verweij, N., van Enckevort, D. J., Huffman, J. E., White, C. C., Feitosa, M. F., Bartz, T. M., Manichaikul, A., Joshi, P. K., Peloso, G. M., Deelen, P., van Dijk, F., Willemsen, G., de Geus, E. J., Milaneschi, Y., Penninx, B. W., Francioli, L. C., Menelaou, A., Pulit, S. L., Rivadeneira, F., Hofman, A., Oostra, B. A., Franco, O. H., Leach, I. M., Beekman, M., de Craen, A. J., Uh, H.-W., Trochet, H., Hocking, L. J., Porteous, D. J., Sattar, N., Packard, C. J., Buckley, B. M., Brody, J. A., Bis, J. C., Rotter, J. I., Mychaleckyj, J. C., Campbell, H., Duan, Q., Lange, L. A., Wilson, J. F., Hayward, C., Polasek, O., Vitart, V., Rudan, I., Wright, A. F., Rich, S. S., Psaty, B. M., Borecki, I. B., Kearney, P. M., Stott, D. J., Cupples, L. A., The Genome of the Netherlands Consortium, including authors, Stoneking, M., Li, M., & others, Jukema, J. W., van der Harst, P., Sijbrands, E. J., Hottenga, J.-J., Uitterlinden, A. G., Swertz, M. A., van Ommen, G.-J.-B., de Bakker, P. I., Slagboom, P. E., Boomsma, D. I., Wijmenga, C., & van Duijn, C. M. (2015). Genome of the Netherlands population - specific imputations identify an ABCA6 variant associated with cholesterol levels. Nature Communications, 6: 6065. | |
Vaughan, A. E., Brumwell, A. N., Xi, Y., Gotts, J. E., Brownfield, D. G., Treutlein, B., Tan, K., Tan, V., Liu, F. C., Looney, M. R., Matthay, M. A., Rock, J. R., & Chapman, H. A. (2015). Lineage-negative progenitors mobilize to regenerate lung epithelium after major injury. Nature, 517(7536), 621-625. | |
Wei, Y.-N., Hu, H.-Y., Xie, G.-C., Fu, N., Ning, Z.-B., Zeng, R., & Khaitovich, P. (2015). Transcript and protein expression decoupling reveals RNA binding proteins and miRNAs as potential modulators of human aging. Genome Biology, 16: 41. | |
Weiß, C. L., Dannemann, M., Prüfer, K., & Burbano, H. A. (2015). Contesting the presence of wheat in the British Isles 8,000 years ago by assessing ancient DNA authenticity from low-coverage data. eLife, 4: e10005. | |
White, L. (2015). Population genetics of selenium-related genes in humans. PhD Thesis, Univ., Leipzig. | |
White, L., Romagné, F., Müller, E., Erlebach, E., Weihmann, A., Parra, G., Andrés, A. M., & Castellano, S. (2015). Genetic adaptation to levels of dietary selenium in recent human history. Molecular Biology and Evolution, 32(6), 1507-1518. |
2014
Andrés, A. M., & Nowick, K. ( | |
Andrés, A. M., & Nowick, K. (2014). Editorial overview: Genetics of human evolution: The genetics of human origins. Current Opinion in Genetics & Development, 29, v-vii. | |
Barbieri, C., Güldemann, T., Naumann, C., Gerlach, L., Berthold, F., Nakagawa, H., Mpoloka, S. W., Stoneking, M., & Pakendorf, B. (2014). Unraveling the complex maternal history of Southern African Khoisan populations. American Journal of Physical Anthropology, 153(3), 435-448. | |
Barbieri, C., Vicente, M., Oliveira, S., Bostoen, K., Rocha, J., Stoneking, M., & Pakendorf, B. (2014). Migration and interaction in a contact zone: mtDNA variation among Bantu-speakers in southern Africa. PLoS One, 9(6): e9911. | |
Benazzi, S., Peresani, M., Talamo, S., Fu, Q., Mannino, M. A., Richards, M. P., & Hublin, J.-J. (2014). A reassessment of the presumed Neandertal remains from San Bernardino Cave, Italy. Journal of Human Evolution, 66(1), 89-94. | |
Bornschein, U. (2014). Altered synaptic plasticity in mice expressing humanspecific variants of FOXP2. PhD Thesis, Universität, Leipzig. | |
Bozek, K., Wei, Y., Yan, Z., Liu, X., Xiong, J., Sugimoto, M., Tomita, M., Pääbo, S., Pieszek, R., Sherwood, C. C., Hof, P. R., Ely, J. J., Steinhauser, D., Bangsbo, J., Willmitzer, L., Hansson, O., Call, J., Giavalisco, P., & Khaitovich, P. (2014). Exceptional evolutionary divergence of human muscle and brain metabolomes parallels human cognitive and physical uniqueness. PLoS Biology, 12(5): e1001871. | |
Brown, S., Savage, P. E., Ko, A.-M.-S., Stoneking, M., Ko, Y.-C., Loo, J.-H., & Trejaut, J. A. (2014). Correlations in the population structure of music, genes and language. Proceedings of the Royal Society of London. Series B: Biological Sciences, 281(1774): 20132072. | |
Carneiro, M., Albert, F. W., Afonso, S., Pereira, R. J., Burbano, H. A., Campos, R., Melo-Ferreira, J., Blanco-Aguiar, J. A., Villafuerte, R., Nachman, M. W., Good, J. M., & Ferrand, N. (2014). The genomic architecture of population divergence between subspecies of the European rabbit. PLoS Genetics, 10(8): e1003519. | |
Carneiro, M., Rubin, C.-J., Palma, F. D., Albert, F. W., Alföldi, J., Barrio, A. M., Pielberg, G., Rafati, N., Sayyab, S., Turner-Maier, J., Younis, S., Afonso, S., Aken, B., Alves, J. M., Barrell, D., Bolet, G., Boucher, S., Burbano, H. A., Campos, R., Chang, J. L., Duranthon, V., Fontanesi, L., Garreau, H., Heiman, D., Johnson, J., Mage, R. G., Peng, Z., Queney, G., Rogel-Gaillard, C., Ruffier, M., Searle, S., Villafuerte, R., Xiong, A., Young, S., Forsberg-Nilsson, K., Good, J. M., Lander, E. S., Ferrand, N., Lindblad-Toh, K., & Andersson, L. (2014). Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication. Science, 345(6200), 1074-1079. | |
Castellano, S., Parra, G., Sánchez-Quinto, F. A., Racimo, F., Kuhlwilm, M., Kircher, M., Sawyer, S., Fu, Q., Heinze, A., Nickel, B., Dabney, J., Siebauer, M. F., White, L., Burbano, H. A., Renaud, G., Stenzel, U., Lalueza-Fox, C., de la Rasilla, M., Rosas, A., Rudan, P., Brajkovic, D., Kucan, Ž., Gušic, I., Shunkov, M. V., Derevianko, A. P., Viola, B., Meyer, M., Kelso, J., Andrés, A. M., & Pääbo, S. (2014). Patterns of coding variation in the complete exomes of three Neandertals. Proceedings of the National Academy of Sciences of the United States of America, 111(18), 6666-6671. | |
Dabney, J. (2014). Increasing access to highly damaged DNA from ancient samples. PhD Thesis, Univ., Leipzig. | |
Dabney, J., Meyer, M., & Pääbo, S. (2014). Ancient DNA damage. In E. C. Friedberg, S. J. Elledge, A. R. Lehmann, T. Lindahl, & M. Muzi-Falconi ( | |
Deelen, P., Menelaou, A., van Leeuwen, E. M., Kanterakis, A., van Dijk, F., Medina-Gomez, C., Francioli, L. C., Hottenga, J. J., Karssen, L. C., Estrada, K., Kreiner-Møller, E., Rivadeneira, F., van Setten, J., Gutierrez-Achury, J., Westra, H.-J., Franke, L., van Enckevort, D., Dijkstra, M., Byelas, H., van Duijn, C. M., Genome of the Netherlands Consortium, including authors, Stoneking, M., Li, M., & others, de Bakker, P. I. W., Wijmenga, C., & Swertz, M. A. (2014). Improved imputation quality of low-frequency and rare variants in European samples using the 'Genome of The Netherlands'. European Journal of Human Genetics, 22(11), 1321-1326. | |
Delfin, F. S., Ko, A.-M.-S., Li, M., Gunnarsdóttir, E. D., Tabbada, K. A., Salvador, J. M., Calacal, G. C., Sagum, M. S., Datar, F. A., Padilla, S. G., Ungria, M. C. A. D., & Stoneking, M. (2014). Complete mtDNA genomes of Filipino ethnolinguistic groups: A melting pot of recent and ancient lineages in the Asia-Pacific region. European journal of human genetics, 22(2), 228-237. | |
Duggan, A. T. (2014). Investigations of the settlement and demographic history of Oceania through whole mitochondrial genome sequence analysis. PhD Thesis, Univ., Leipzig. | |
Duggan, A. T., & Stoneking, M. (2014). Recent developments in the genetic history of East Asia and Oceania. Current Opinion in Genetics & Development, 29, 9-14. | |
Duggan, A. T., Evans, B., Friedlaender, F. R., Friedlaender, J. S., Koki, G., Merriwether, D. A., Kayser, M., & Stoneking, M. (2014). Maternal history of Oceania from complete mtDNA genomes: Contrasting ancient diversity with recent homogenization due to the Austronesian expansion. The American Journal of Human Genetics, 94(5), 721-733. | |
Engelken, J., Carnero-Montoro, E., Pybus, M., Andrews, G. K., Lalueza-Fox, C., Comas, D., Sekler, I., de la Rasilla, M., Rosas, A., Stoneking, M., Valverde, M. A., Vicente, R., & Bosch, E. (2014). Extreme population differences in the human zinc transporter ZIP4 (SLC39A4) are explained by positive selection in Sub-Saharan Africa. PLoS Genetics, 10(2): e1004128. | |
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