Publications

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Shah, N., Wakabayashi, T., Kawamura, Y., Skovbjerg, C. K., Wang, M.-Z., Mustamin, Y., Isomura, Y., Gupta, V., Jin, H., Mun, T., Sandal, N., Azuma, F., Fukai, E., Seren, Ü., Kusakabe, S., Kikuchi, Y., Nitanda, S., Kumaki, T., Hashiguchi, M. ... Andersen, S. U. (2020). Extreme genetic signatures of local adaptation during Lotus japonicus colonization of Japan. Nature Communications, 11(1), Article 253. https://doi.org/10.1038/s41467-019-14213-y

Skov, L., Coll Macià, M., Lucotte, E. A., Cavassim, M. I. A., Castellano, D., Schierup, M. H. & Munch, K. (2023). Extraordinary selection on the human X chromosome associated with archaic admixture. Cell Genomics, 3(3), Article 100274. https://doi.org/10.1016/j.xgen.2023.100274

Hvilsom, C., Qian, Y., Bataillon, T., Li, Y., Mailund, T., Sallé, B., Carlsen, F., Li, R., Zheng, H., Jiang, T., Jiang, H., Jin, X., Munch, K., Hobolth, A., Siegismund, H. R., Wang, J. & Schierup, M. H. (2012). Extensive X-linked adaptive evolution in central chimpanzees. Proceedings of the National Academy of Sciences (PNAS). https://doi.org/10.1073/pnas.1106877109

Garcia-Erill, G., Wang, X., Rasmussen, MS., Quinn, L., Khan, A., Bertola, LD., Santander, CG., Balboa, RF., Ogutu, JO., Pečnerová, P., Hanghøj, K., Kuja, J., Nursyifa, C., Masembe, C., Muwanika, V., Bibi, F., Moltke, I., Siegismund, HR., Albrechtsen, A. & Heller, R. (2024). Extensive Population Structure Highlights an Apparent Paradox of Stasis in the Impala (Aepyceros melampus). Molecular Ecology, 33(22), Article e17539. https://doi.org/10.1111/mec.17539

McFarland, K. N., Tiwari, A., Hashem, V., Zhang, L., Zeng, D., Vincent, J., Arredondo, M. J., Johnson, K. L., Gan, S. R., Yabe, I., Skov, L., Rasmussen, A. & Ashizawa, T. (2024). Extended haplotype with rs41524547-G defines the ancestral origin of SCA10. Human Molecular Genetics, 33(18), 1567-1574. https://doi.org/10.1093/hmg/ddae092

Branscheid, A., Sieh, D., Pant, B. D., May, P., Devers, E. A., Elkrog, A., Schauser, L., Scheible, W.-R. & Krajinski, F. (2010). Expression pattern suggests a role of MiR399 in the regulation of the cellular response to local Pi increase during arbuscular mycorrhizal symbiosis. Molecular plant-microbe interactions, 23(7), 915-26. https://doi.org/10.1094/MPMI-23-7-0915

Boggs, N. A., Dwyer, K. G., Shah, P., McCulloch, A. A., Bechsgaard, J., Schierup, M. H., Nasrallah, M. E. & Nasrallah, J. B. (2009). Expression of distinct self-incompatibility specificities in Arabidopsis thaliana. Genetics, 182(4), 1313-21. https://doi.org/10.1534/genetics.109.102442

Weiss, S., Lamy, P., Rusan, M., Nørgaard, M., Ulhøi, B. P., Knudsen, M., Kassentoft, C. G., Farajzadeh, L., Jensen, J. B., Pedersen, J. S., Borre, M. & Sørensen, K. D. (2024). Exploring the tumor genomic landscape of aggressive prostate cancer by whole-genome sequencing of tissue or liquid biopsies. International Journal of Cancer, 155(2), 298-313. https://doi.org/10.1002/ijc.34949

Andersen, L., Christensen, D. S., Kjær, A., Knudsen, M., Andersen, A. K., Laursen, M. B., Ahrenfeldt, J., Laursen, B. E. & Birkbak, N. J. (2024). Exploring the molecular landscape of cancer of unknown primary: A comparative analysis with other metastatic cancers. Molecular Oncology, 18(10), 2393-2406. https://doi.org/10.1002/1878-0261.13664

Ahrenfeldt, J., Carstensen, S., Eriksen, I. M. H. & Birkbak, N. J. (2024). Exploring the impact of body mass index on tumor biology and cancer development. Journal of Cancer Research and Clinical Oncology, 150(7), Article 372. https://doi.org/10.1007/s00432-024-05890-4

Breinbjerg, A., Jørgensen, C. S., Walters, G. B., Grove, J., Als, T. D., Kamperis, K., Stéfansdóttir, L., Thirstrup, J. P., Borg, B., Albiñana, C., Vilhjálmsson, B. J., Eðvarðsson, V. Ö., Stefánsson, H., Mortensen, P. B., Agerbo, E., Werge, T., Børglum, A., Demontis, D., Stefánsson, K. ... Christensen, J. H. (2024). Exploring the Genetic Risk of Childhood Daytime Urinary Incontinence: A Genome-Wide Association Study. The Journal of Urology, 212(6), 851-861. https://doi.org/10.1097/JU.0000000000004187

Andersen, L., Kisistók, J., Henriksen, T. V., Bramsen, J. B., Reinert, T., Øgaard, N., Mattesen, T. B., Birkbak, N. J. & Andersen, C. L. (2024). Exploring the biology of ctDNA release in colorectal cancer. European Journal of Cancer, 207, Article 114186. https://doi.org/10.1016/j.ejca.2024.114186

Salavati, M. & GplusE Consortium (2017). Exploratory classification of multiparous dairy cows based on fertility related phenotypes. In Book of Abstracts of the 68th Annual Meeting of the European Federation of Animal Science (pp. 402-402). Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-859-9

Billington, J., Gallasch, G. E., Kristensen, L. M. & Mailund (2004). Exploiting Equivalence Reduction and the Sweep-Line Method for Detecting Terminal States. IEEE Transactions on Systems, Man, and Cybernetics Part A:Systems and Humans, 34(1), 23-37.

Leppälä, K. (2016). EXPLICIT LOWER BOUNDS FOR LINEAR FORMS. Mathematics of Computation, 85(302), 2995-3008. https://doi.org/10.1090/mcom/3078

Rousing, T., Rothmann Holm, J., Krogh, M. A., Østergaard, S. & GplusE Consortium (2020). Expert-based development of a generic HACCP-based risk management system to prevent critical negative energy balance in dairy herds. Preventive Veterinary Medicine, 175, Article 104849. https://doi.org/10.1016/j.prevetmed.2019.104849

Chen, G., Kobek-Kjeldager, C., Jensen, L. D., Kristensen, J. K., Kaiser, M., Thodberg, K., Zhang, G., Rong, L., Herskin, M. S. & Foldager, L. (2024). Experimental study on temperature difference between the interior and exterior of the vehicle transporting weaner pigs. Biosystems Engineering, 247, 119-131. https://doi.org/10.1016/j.biosystemseng.2024.09.001

Mailund, T., Pedersen, C. N. S., Bardino, J., Vinter, B. & Karlsen, H. (2007). Experiences with GeneRecon on MiG. Future Generation Computer Systems - The International Journal of eScience, 23, 580-586. https://doi.org/10.1016/j.future.2006.09.003

Castagnini, A., Foldager, L. & Bertelsen, A. (2013). Excess mortality of acute and transient psychotic disorders: comparison with bipolar affective disorder and schizophrenia. Acta Psychiatrica Scandinavica, 128(5), 370-375. https://doi.org/10.1111/acps.12077

Knudsen, M., Feliu, E. & Wiuf, C. H. (2012). Exact Analysis of Intrinsic Qualitative Features of Phosphorelays using Mathematical Models. Journal of Theoretical Biology, 300, 7-18. https://doi.org/10.1016/j.jtbi.2012.01.007

Anderson, J. WJ., Tataru, P. C., Stains, J., Hein, J. & Lyngsø, R. (2012). Evolving stochastic context-free grammars for RNA secondary structure prediction. BMC Bioinformatics, 13(78). https://doi.org/10.1186/1471-2105-13-78

Finster, K., Wang, T., Borchsenius, F. & Christiansen, F. B. (Eds.) (2016). Evolutionsbiologiske milepæle. (1 ed.) Aarhus Universitetsforlag.

Bergeron, L. A., Besenbacher, S., Zheng, J., Li, P., Bertelsen, M. F., Quintard, B., Hoffman, J. I., Li, Z., St. Leger, J., Shao, C., Stiller, J., Gilbert, M. T. P., Schierup, M. H. & Zhang, G. (2023). Evolution of the germline mutation rate across vertebrates. Nature, 615(7951), 285-291. https://doi.org/10.1038/s41586-023-05752-y

Einer-Jensen, K., Ahrens, P., Forsberg, R. & Lorenzen, N. (2004). Evolution of the fish rhabdovirus viral haemorrhagic septicaemia virus. Journal of General Virology, 85(5), 1167-1179.

Feldman, M. W., Christiansen, F. & Brooks, L. (1980). Evolution of recombination in a constant environmen. Proceedings of the National Academy of Sciences (PNAS), 77, 4838-4841.

Pedersen, C. N. S., Axelsen, K. B., Harper, J. F. & Palmgren, M. G. (2012). Evolution of plant P-type ATPases. Frontiers in Plant Science, 21. https://doi.org/10.3389/fpls.2012.00031

Schauser, L., Wieloch, W. & Stougaard, J. (2005). Evolution of NIN-like proteins in Arabidopsis, rice and Lotus japonicus. Journal of Molecular Evolution, 60(2), 229-237. https://doi.org/10.1007/s00239-004-0144-2

Loeschcke, V. & Christiansen, F. (1990). Evolution of mutualism. In K. Wohrman & S. K. Jain (Eds.), Population Biology (pp. 393-399). Springer.

Schick, A., Bailey, S. & Kassen, R. (2015). Evolution of fitness trade-offs in locally adapted populations of Pseudomonas fluorescens. American Naturalist, 186(S1), S48-S59. https://doi.org/10.1086/682932

Caprani, O., Fredslund, J., Jacobsen, J., Kramhøft, L., Lunding, R. B., Ilsø, J. M. & Wahlberg, M. (2003). Evolution of Computer Bugs – an Interdisciplinary Team Work. In K. H. Madsen & L. Qvortrup (Eds.), Behind the Scenes of Multimedia Production (pp. 186-215). Springer.

Christiansen, F. & Loeschcke, V. (1990). Evolution of competition. In K. Wohrman & S. K. Jain (Eds.), Population Biology (pp. 367-392). Springer.

Villesen, P., Mueller, U. G., Schultz, T. R., Adams, R. M. M. & Bouck, A. C. (2004). Evolution of Ant-Cultivar Switching in Apterostigma Fungus-growing Ants. Evolution, 58, 2252-2265.

Christiansen, F. (1984). Evolution in a temporally varying environment: Density and composition dependent genotypic fitnesses. In K. Wohrmann & V. Loeschcke (Eds.), Population Biology and Evolution (pp. 115–124). Springer.

Christiansen, F. & Fenchel, T. (2009). Evolution - Den forudsigelige vilkårlighed. Aarhus Universitetsforlag.

Stumpf, M. P., Kelly, W. P., Thorne, T. & Wiuf, C. (2007). Evolution at the system level: The natural history of protein interaction networks. TREE, 22(7), 366-372.

Villesen, P., Gertsch, P. J., Frydenberg, J., Mueller, U. G. & Boomsma, J. J. (1999). Evolutionary transition from single to multiple mating in fungus-growing ants. Molecular Ecology, 8(11), 1819-1825.

Wang, J., Zhang, J., Li, R., Zheng, H., Li, J., Zhang, Y., Li, H., Ni, P., Li, S., Li, S., Wang, J., Liu, D., McDermott, J., Samudrala, R., Liu, S., Wang, J., Yang, H., Yu, J. & Wong, G. K.-S. (2010). Evolutionary transients in the rice transcriptome. Genomics Proteomics & Bioinformatics, 8(4), 211-28. https://doi.org/10.1016/S1672-0229(10)60023-X

Penn, O., Stern, A., Rubinstein, N. D., Dutheil, J., Bacharach, E., Galtier, N. & Pupko, T. (2008). Evolutionary modeling of rate shifts reveals specificity determinants in HIV-1 subtypes. PLoS Computational Biology, 4(11), e1000214. https://doi.org/10.1371/journal.pcbi.1000214

Waldvogel, A. M., Feldmeyer, B., Rolshausen, G., Exposito-Alonso, M., Rellstab, C., Kofler, R., Mock, T., Schmid, K., Schmitt, I., Bataillon, T., Savolainen, O., Bergland, A., Flatt, T., Guillaume, F. & Pfenninger, M. (2020). Evolutionary genomics can improve prediction of species’ responses to climate change. Evolution Letters, 4(1), 4-18. https://doi.org/10.1002/evl3.154

Hartfield, M. (2016). Evolutionary genetic consequences of facultative sex and outcrossing. Journal of Evolutionary Biology, 29(1), 5-22. https://doi.org/10.1111/jeb.12770

Bergman, J. & Schierup, M. H. (2022). Evolutionary dynamics of pseudoautosomal region 1 in humans and great apes. Genome Biology, 23, Article 215. https://doi.org/10.1186/s13059-022-02784-x

Birkbak, N. J., TRACERx Consortium, TRACERx EVO Consortium & PEACE Consortium (2026). Evolutionary characterization of lung cancer metastasis. Nature. Advance online publication. https://doi.org/10.1038/s41586-026-10428-4

Karasaki, T., Moore, D. A., Veeriah, S., Naceur-Lombardelli, C., Toncheva, A., Magno, N., Ward, S., Bakir, M. A., Watkins, T. B. K., Grigoriadis, K., Huebner, A., Hill, M. S., Frankell, A. M., Abbosh, C., Puttick, C., Zhai, H., Gimeno-Valiente, F., Saghafinia, S., Kanu, N. ... TRACERx Consortium (2023). Evolutionary characterization of lung adenocarcinoma morphology in TRACERx. Nature Medicine, 29(4), 833-845. https://doi.org/10.1038/s41591-023-02230-w

Bataillon, T. & Ronfort, J. (2007). Evolutionary and Ecological Genetics of Medicago truncatula. In The Medicago Handbook [On line] http://www.noble.org/MedicagoHandbook/pdf/EvolutionaryEcologicalGenetics.pdf

Yang, C., Zhou, Y., Marcus, S., Formenti, G., Bergeron, L. A., Song, Z., Bi, X., Bergman, J., Rousselle, M. M. C., Zhou, C., Zhou, L., Deng, Y., Fang, M., Xie, D., Zhu, Y., Tan, S., Mountcastle, J., Haase, B., Balacco, J. ... Zhang, G. (2021). Evolutionary and biomedical insights from a marmoset diploid genome assembly. Nature, 594(7862), 227-233. https://doi.org/10.1038/s41586-021-03535-x

Lohmann, G. V., Shimoda, Y., Nielsen, M. W., Jørgensen, F. G., Grossmann, C., Sandal, N., Sørensen, K., Thirup, S., Madsen, L. H., Tabata, S., Sato, S., Stougaard, J. & Radutoiu, S. (2010). Evolution and regulation of the Lotus japonicus LysM receptor gene family. Molecular plant-microbe interactions, 23(4), 510-21. https://doi.org/10.1094/MPMI-23-4-0510

Christiansen, F. & Loeschcke, V. (1980). Evolution and intraspecific exploitative competition I. One-locus theory for small additive gene effects. Theoretical Population Biology, 18, 297–313.

Christiansen, F. (1987). Evolution and intraspecific exploitative competition III. One-locus theory for small additive gene effects and multidimensional resource qualities. Theoretical Population Biology, 31, 33-46.

Loeschcke, V. & Christiansen, F. (1984). Evolution and intraspecific exploitative competition II. A two locus model for additive gene effects. Theoretical Population Biology, 26, 228–264.

Christiansen, F. B. (2008). Evolutionær tilpasning. Matilde, (38), 16-19.

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Revised 13.01.2026

Palle Villesen