Publications

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Harding EF, Zhang Z, De Souza CR, Nino Barreat JG, Katzourakis A (2026) An ancient alpharetrovirus lineage in bats: Evolutionary insights and possible roles in reproduction. PLOS Genetics 22(8): e1012277. https://doi.org/10.1371/journal.pgen.1012277

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. https://doi.org/10.1093/bioinformatics/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. https://doi.org/10.1038/s41564-024-01825-4 

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.