Publications

Weber, A.; Översti, S.; Kühnert, D.: Reconstructing relative transmission rates in Bayesian phylodynamics: two-fold transmission advantage of Omicron in Berlin, Germany during December 2021. Virus Evolution 9 (2), vead070 (2023)

Heggarty, P.; Anderson, C.; Scarborough, M.; King, B.; Bouckaert, R.; Jocz, L.; Kümmel, M. J.; Jügel, T.; Irslinger, B.; Pooth, R. et al.; Liljegren, H.; Strand, R. F.; Haig, G.; Macák, M.; Kim, R. I.; Anonby, E.; Pronk, T.; Belyaev, O.; Dewey-Findell, T. K.; Boutilier, M.; Freiberg, C.; Tegethoff, R.; Serangeli, M.; Liosis, N.; Stroński, K.; Schulte, K.; Gupta, G. K.; Haak, W.; Krause, J.; Atkinson, Q. D.; Greenhill, S. J.; Kühnert, D.; Gray, R. D.: Language trees with sampled ancestors support a hybrid model for the origin of Indo-European languages. Science 381 (6656), eabg0818, pp. 1 - 12 (2023)

Esquivel Gomez, L. R.; Savin, C.; Andrianaivoarimanana, V.; Rahajandraibe, S.; Randriantseheno, L. N.; Zhou, Z.; Kocher, A.; Didelot, X.; Rajerison, M.; Kühnert, D.: Phylogenetic analysis of the origin and spread of plague in Madagascar. PLoS Neglected Tropical Diseases 17 (5), e0010362 (2023)

Begg, T.; Schmidt, A.; Kocher, A.; Larmuseau, M. H.D.; Runfeldt, G.; Maier, P. A.; Wilson, J. D.; Barquera, R.; Maj, C.; Szolek, A. et al.; Sager, M.; Clayton, S.; Peltzer, A.; Hui, R.; Ronge, J.; Reiter, E.; Freund, C.; Burri Promerová, M.; Aron, F.; Tiliakou, A.; Osborn, J.; Behar, D. M.; Boecker, M.; Brandt, G.; Cleynen, I.; Strassburg, C.; Prüfer, K.; Kühnert, D.; Meredith, W. R.; Nöthen, M. M.; Attenborough, R. D.; Kivisild, T.; Krause, J.: Genomic analyses of hair from Ludwig van Beethoven. Current Biology 33 (8), 2023.02.041, pp. 1431 - 1447.e22 (2023)

Kocher, A.; Cornuault, J.; Gantier, J.-C.; Manzi, S.; Chavy, A.; Girod, R.; Dusfour, I.; Forget, P.-M.; Ginouves, M.; Prévot, G. et al.; Guégan, J.-F.; Bañuls, A.-L.; de Thoisy, B.; Murienne, J.: Biodiversity and vector-borne diseases: host dilution and vector amplification occur simultaneously for Amazonian leishmaniases. Molecular Ecology 32 (8), 16341, pp. 1817 - 1831 (2023)

Fischer, M.; Herbst, L.; Kersting, S.; Kühn, A. L.; Wicke, K.: Tree balance indices: a comprehensive survey. Springer Cham, Cham (2023), XV, 404 pp.

Lamkiewicz, K.; Gomez, L. R. E.; Kühnert, D.; Marz , M.: Genome structure, life cycle, and taxonomy of Coronaviruses and the evolution of SARS-CoV-2. In: Viral fitness and evolution: population dynamics and adaptive mechanisms, 9, 1 Ed., pp. 305 - 339 (Eds. Domingo, E.; Schuster, P.; Elena, S. F.; Perales, C.). Springer, Cham (2023)

Borry, M.; Forsythe, A.; Valtueña, A. A.; Hübner, A.; Ibrahim, A.; Quagliariello, A.; White, A. E.; Kocher, A.; Vågene, Å. J.; Bartholdy, B. P. et al.; Spurīte, D.; Ponce-Soto, G. Y.; Neumann, G.; Huang, I.-T.; Light, I.; Velsko, I. M.; Jackson, I.; Frangenberg, J.; Serrano, J. G.; Fumey, J.; Özdoğan, K. T.; Blevins, K. E.; Daly, K. G.; Lopopolo, M.; Moraitou, M.; Michel, M.; van Os, M.; Bravo-Lopez, M. J.; Sarhan, M. S.; Dagtas, N. D.; Oskolkov, N.; Smith, O. S.; Lebrasseur, O.; Rozwalak, P.; Eisenhofer, R.; Wasef, S.; Ramachandran, S. L.; Vanghi, V.; Warinner, C.; Yates, J. A. F.: Facilitating accessible, rapid, and appropriate processing of ancient metagenomic data with AMDirT. (2023)

Översti, S.; Gaul, E.; Jensen, B.-E. O.; Kühnert, D.: Phylogenetic meta-analysis of chronic SARS-CoV-2 infections in immunocompromised patients shows no evidence of elevated evolutionary rates. bioRxiv, 565087 (2023)