Publications

For a full list of publications, visit here

Select publications

Muñoz-Baena, L., Harding, E.F., Nino Barreat, J.G., Kinsella, C.M., Katzourakis A. (2025) HI-FEVER: a Nextflow pipeline for the high-throughput discovery and annotation of endogenous viral elements, Bioinformatics, Volume 41, Issue 12, btaf610

Nino Barreat, J.G., Katzourakis, A. (2024) Deep mining reveals the diversity of endogenous viral elements in vertebrate genomes. Nature Microbiology, 9, 3013–3024

Skirmuntt E, Escalera-Zamudio M, Teeling EC, Smith A, Katzourakis A. (2020) The potential role of endogenous viral elements in the evolution of bats as reservoirs for zoonotic viruses. Annual Review of Virology 7:103-119

Jebb D, Huang Z, Pippel M, Hughes GM, Lavrichenko K, Devanna P, Winkler Sylke, Jermiin LS, Skirmuntt EC, Katzourakis A, et al (2020) Six reference-quality genomes reveal evolution of bat adaptations. Nature 583(7817):578-584

Aiewsakun P, Simmonds P, Katzourakis A. (2019) The first co-opted endogenous foamy virus and the evolutionary history of reptilian foamy viruses. Viruses 11 (7):641

Simmonds P, Aiewsakun P, Katzourakis A. (2019) Prisoners of war - host adaptation and its constraints on virus evolution. Nature Reviews Microbiology 17(5):321-328

Aiewsakun P, Katzourakis A. (2017) Marine origin of retroviruses in the early paleozoic era. Nature Communications 8:13954

Aiewsakun P, Katzourakis A. (2016) Time-dependent rate phenomenon in viruses. Journal of Virology 90(16):7184-95

Magiorkinis G, Angelis K, Mamais I, Katzourakis A, et al [50 authors in total]. (2016) The global spread of HIV-1 subtype B epidemic. Infection Genetics and evolution S1567-1348(16)30223-4

Aswad A, Katzourakis A. (2014) The first endogenous herpesvirus, identified in the tarsier genome, and novel sequences from primate rhadinoviruses and lymphocryptoviruses. PLoS Genetics 10:e1004332

Katzourakis A, Magiorkinis G, Lim A, Gupta S, Belshaw R, Gifford RJ. (2014) Larger mammalian body size leads to lower retroviral activity. PLoS Pathogens 10:e1004214 (covered by Science and Scientific American)

Katzourakis A, Aswad A (2014) The origins of giant viruses, virophages and their relatives in host genomes. BMC Biology 12:51

Katzourakis A, Gifford RJ. (2010) Endogenous viral elements in animal genomes. PLoS Genetics 6:e1001191. (Associated commentary in PLoS Genetics by Welkin Johnson)

Huang KH, Bonsall D, Katzourakis A, et al. (2010) B-cell depletion reveals a role for antibodies in the control of chronic HIV-1 infection. Nature Communications 1:102

Bhatt S, Katzourakis A, Pybus OG. (2010) Detecting natural selection in RNA virus populations using sequence summary statistics. Infection Genetics & Evolution 10:421-30

Keckesova Z, Ylinen LMJ, Towers GJ, Gifford RJ, Katzourakis A. (2009). Identification of a RELIK orthologue in the genome of the European hare (Lepus Europaeus) reveals a minimum age of 12 million years for the lagomorph lentiviruses. Virology 384: 7-11.

Katzourakis A, Tristem M, Pybus OG, Gifford RJ. (2007). Discovery and analysis of the first endogenous lentivirus. Proceedings of the National Academy of Sciences USA 104: 6261-6265. (Associated commentary in PNAS, Science News Magazine, and Selected by Faculty of 1000).

Belshaw R, Pereira V, Katzourakis A, Talbot G, Paces J, Burt A, Tristem M. (2004). Long-term reinfection of the human genome by endogenous retroviruses. Proceedings of the National Academy of Sciences USA 101: 4894-4899.