Klaassen, M. & Wille, M. The plight and role of wild birds in the current bird flu panzootic. Nat. Ecol. Evol. 7, 1541–1542 (2023).
Peacock, T. P. et al. The global H5N1 influenza panzootic in mammals. Nature 637, 304–313 (2025).
Plaza, P. I., Gamarra-Toledo, V., Euguí, J. R. & Lambertucci, S. A. Recent changes in patterns of mammal infection with highly pathogenic avian influenza A(H5N1) virus worldwide. Emerg. Infect. Dis. 30, 444–452 (2024).
Banyard, A. C. et al. Detection and spread of high pathogenicity avian influenza virus H5N1 in the Antarctic Region. Nat. Commun. 15, 7433 (2024).
Wan, X. F. Isolation and characterization of H4N6 avian influenza viruses from mallard ducks in Beijing, China. Plos ONE 12, e0184437 (2017).
Wan, X. F. Lessons from emergence of A/goose/Guangdong/1996-like H5N1 highly pathogenic avian influenza viruses and recent influenza surveillance efforts in southern China: Lessons from gs/Gd/96-like H5N1 HPAIVs. Zoonoses Public Health 59, 32–42 (2012).
Abolnik, C. et al. The incursion and spread of highly pathogenic avian influenza H5N8 clade 2.3.4.4 within South Africa. Avian Dis. 63, 149–156 (2019).
Lee, D.-H., Bertran, K., Kwon, J.-H. & Swayne, D. E. Evolution, global spread, and pathogenicity of highly pathogenic avian influenza H5Nx clade 2.3.4.4. J. Vet. Sci. 18, 269–280 (2017).
Lane, J. V. et al. High pathogenicity avian influenza (H5N1) in Northern Gannets (Morus bassanus): Global spread, clinical signs and demographic consequences. IBIS 166, 633–650 (2023).
Knief, U. et al. Highly pathogenic avian influenza causes mass mortality in Sandwich Tern Thalasseus sandvicensis breeding colonies across north-western Europe. Bird. Conserv. Int. 34, e6 (2024).
European Food Safety Authority, European Centre for Disease Prevention and Control, European Union Reference Laboratory for Avian Influenza et al. Avian influenza overview September – December 2022. EFSA J. 21, e07786 (2023).
Abolnik, C. et al. Molecular and in vivo characterization of the high pathogenicity H7N6 avian influenza virus that emerged in South African poultry in 2023. Transbound. Emerg. Dis. 2024, 8878789 (2024).
Molini, U. et al. Highly pathogenic avian influenza H5N1 virus outbreak among Cape cormorants (Phalacrocorax capensis) in Namibia, 2022. Emerg. Microbes Infect. 12, 2167610 (2023).
Abolnik, C., Roberts, L. C., Strydom, C., Snyman, A. & Roberts, D. G. Outbreaks of H5N1 high pathogenicity avian influenza in South Africa in 2023 were caused by two distinct sub-genotypes of clade 2.3.4.4b viruses. Viruses 16, 896 (2024).
Alkie, T. N. et al. A threat from both sides: Multiple introductions of genetically distinct H5 HPAI viruses into Canada via both East Asia-Australasia/Pacific and Atlantic flyways. Virus Evol. 8, veac077 (2022).
Leguia, M. et al. Highly pathogenic avian influenza A (H5N1) in marine mammals and seabirds in Peru. Nat. Commun. 14, 5489 (2023).
Uhart, M. M. et al. Epidemiological data of an influenza A/H5N1 outbreak in elephant seals in Argentina indicates mammal-to-mammal transmission. Nat. Commun. 15, 9516 (2024).
Tomás, G. et al. Highly pathogenic avian influenza H5N1 virus infections in pinnipeds and seabirds in Uruguay: Implications for bird-mammal transmission in South America. Virus Evol. 10, veae031 (2024).
Wille, M. et al. Long-distance avian migrants fail to bring 2.3.4.4b HPAI H5N1 into Australia for a second year in a row. Influenza Other Respi. Viruses 18, e13281 (2024).
Lisovski, S. et al. Unexpected delayed incursion of highly pathogenic avian influenza H5N1 (clade 2.3.4.4b) into the antarctic region. Influenza Other Respi. Viruses 18, e70010 (2024).
Gamarra-Toledo, V. et al. Highly pathogenic avian influenza (HPAI) strongly impacts wild birds in Peru. Biol. Conserv. 286, 110272 (2023).
Bennison, A. et al. A case study of highly pathogenic avian influenza (HPAI) H5N1 at Bird Island, South Georgia: the first documented outbreak in the subantarctic region. Bird Study 71, 380–391 (2024).
Delord, K. et al. Atlas of top predators from French Southern Territories in the Southern Indian Ocean. [Research Report] CNRS http://www.cebc.cnrs.fr/ecomm/Fr_ecomm/ecomm_ecor_OI1.html (2014).
UNESCO World Heritage Convention. French Austral Lands and Seas. https://whc.unesco.org/en/list/1603/ (2019).
Dias, M. P. et al. Threats to seabirds: A global assessment. Biol. Conserv. 237, 525–537 (2019).
Boulinier, T. Avian influenza spread and seabird movements between colonies. Trends Ecol. Evol. 38, 391–395 (2023).
Hindell, M. A. et al. Tracking of marine predators to protect Southern Ocean ecosystems. Nature 580, 87–92 (2020).
Worobey, M., Han, G.-Z. & Rambaut, A. A synchronized global sweep of the internal genes of modern avian influenza virus. Nature 508, 254–257 (2014).
Baele, G. et al. HIPSTR: highest independent posterior subtree reconstruction in TreeAnnotator X. Bioinformatics btaf488. https://doi.org/10.1093/bioinformatics/btaf488 (2025).
Caceres, P. et al. The World Animal Health Information System as a tool to support decision-making and research in animal health. Rev. Sci. Tech. 42, 242–251 (2023).
Scientific Committee on Antarctic Research. SCAR Antarctic Wildlife Health Network HPAI Database. https://scar.org/library-data/avian-flu#database (2023).
Biuw, M. et al. Variations in behavior and condition of a Southern Ocean top predator in relation to in situ oceanographic conditions. Proc. Natl. Acad. Sci. USA 104, 13705–13710 (2007).
Suttie, A. et al. Inventory of molecular markers affecting biological characteristics of avian influenza A viruses. Virus Genes 55, 739–768 (2019).
Yang, Z.-Y. et al. Immunization by avian H5 influenza hemagglutinin mutants with altered receptor binding specificity. Science 317, 825–828 (2007).
Wang, W. et al. Glycosylation at 158N of the hemagglutinin protein and receptor binding specificity synergistically affect the antigenicity and immunogenicity of a live attenuated H5N1 A/Vietnam/1203/2004 vaccine virus in ferrets. J. Virol. 84, 6570–6577 (2010).
Gao, Y. et al. Identification of amino acids in HA and PB2 critical for the transmission of H5N1 avian influenza viruses in a mammalian host. PLoS Pathog. 5, e1000709 (2009).
Delord, K. et al. Migration behaviour, wintering areas conservation biology brown skuas breeding subtropical Amsterdam Island. Res. Sq. https://doi.org/10.21203/rs.3.rs-5874357/v1 (2025).
Duvenage, E. Avian flu suspected on South Africa’s remote Marion Island. Nat. Afr. https://doi.org/10.1038/d44148-024-00345-x (2024).
Independent Online. Concerns over Avian Flu on Marion Island as testing samples delayed. (2024).
Erdelyan, C. N. G. et al. Multiple transatlantic incursions of highly pathogenic avian influenza clade 2.3.4.4b A(H5N5) virus into North America and spillover to mammals. Cell Rep. 43, 114479 (2024).
Paz, M. et al. Understanding the emergence of highly pathogenic avian influenza A virus H5N1 in pinnipeds: An evolutionary approach. Virus Res. 350, 199472 (2024).
Fiorito, C. et al. Pathology of Influenza A (H5N1) infection in pinnipeds reveals novel tissue tropism and vertical transmission. Preprint at https://doi.org/10.1101/2025.02.07.636856 (2025).
Weimerskirch, H. et al. Lifetime foraging patterns of the wandering albatross: Life on the move! J. Exp. Mar. Bio. Ecol. 450, 68–78 (2014).
de Grissac, S., Börger, L., Guitteaud, A. & Weimerskirch, H. Contrasting movement strategies among juvenile albatrosses and petrels. Sci. Rep. 6, 26103 (2016).
de Souza Petersen, E. et al. First detection of avian influenza virus (H4N7) in Giant Petrel monitored by geolocators in the Antarctic region. Mar. Biol. 164, 62 (2017).
Delord, K., Cherel, Y., Barbraud, C., Chastel, O. & Weimerskirch, H. High variability in migration and wintering strategies of brown skuas (Catharacta antarctica lonnbergi) in the Indian Ocean. Polar Biol. 41, 59–70 (2018).
Boulinier, T. et al. Migration, prospecting, dispersal? What host movement matters for infectious agent circulation? Integr. Comp. Biol. 56, 330–342 (2016).
Dewar, M. et al. The risk of highly pathogenic avian influenza in the Southern Ocean: a practical guide for operators and scientists interacting with wildlife. Antarct. Sci. 35, 407–414 (2023).
Naguib, M. M. et al. Novel real-time PCR-based patho- and phylotyping of potentially zoonotic avian influenza A subtype H5 viruses at risk of incursion into Europe in 2017. Euro Surveill. 22, 30435 (2017).
Briand, F.-X. et al. Highly pathogenic clade 2.3.4.4b H5N1 influenza virus in seabirds in France, 2022-2023. Transbound. Emerg. Dis. 2025, 8895883 (2025).
Zhou, B. et al. Single-reaction genomic amplification accelerates sequencing and vaccine production for classical and Swine origin human influenza a viruses. J. Virol. 83, 10309–10313 (2009).
Sayers, E. W. et al. Database resources of the national center for biotechnology information. Nucleic Acids Res. 50, D20–D26 (2022).
Elbe, S. & Buckland-Merrett, G. Data, disease and diplomacy: GISAID’s innovative contribution to global health: Data, Disease and Diplomacy. Glob. Chall. 1, 33–46 (2017).
Shu, Y. & McCauley, J. GISAID: Global initiative on sharing all influenza data – from vision to reality. Euro Surveill. 22, 30494 (2017).
Katoh, K. & Standley, D. M. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol. Biol. Evol. 30, 772–780 (2013).
Minh, B. Q. et al. IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era. Mol. Biol. Evol. 37, 1530–1534 (2020).
Kalyaanamoorthy, S., Minh, B. Q., Wong, T. K. F., von Haeseler, A. & Jermiin, L. S. ModelFinder: fast model selection for accurate phylogenetic estimates. Nat. Methods 14, 587–589 (2017).
Minh, B. Q., Nguyen, M. A. T. & von Haeseler, A. Ultrafast approximation for phylogenetic bootstrap. Mol. Biol. Evol. 30, 1188–1195 (2013).
Hoang, D. T., Chernomor, O., von Haeseler, A., Minh, B. Q. & Vinh, L. S. UFBoot2: Improving the ultrafast bootstrap approximation. Mol. Biol. Evol. 35, 518–522 (2018).
Holtz, A., Baele, G., Bourhy, H. & Zhukova, A. Integrating full and partial genome sequences to decipher the global spread of canine rabies virus. Nat. Commun. 14, 4247 (2023).
Rambaut, A., Lam, T. T., Max Carvalho, L. & Pybus, O. G. Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen). Virus Evol. 2, vew007 (2016).
Suchard, M. et al. Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10. Virus Evol. 4, vey016 (2018).
Ayres, D. L. et al. BEAGLE 3: Improved performance, scaling, and usability for a high-performance computing library for statistical phylogenetics. Syst. Biol. 68, 1052–1061 (2019).
Gill, M. S. et al. Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci. Mol. Biol. Evol. 30, 713–724 (2013).
Hill, V. & Baele, G. Bayesian estimation of past population dynamics in BEAST 1.10 using the skygrid coalescent model. Mol. Biol. Evol. 36, 2620–2628 (2019).
Tavaré, S. Some probabilistic and statistical problems in the analysis of DNA sequences. Lectures Math. Life Sci. 17, 57–86 (1986).
Yang, Z. Among-site rate variation and its impact on phylogenetic analyses. Trends Ecol. Evol. 11, 367–372 (1996).
Drummond, A. J., Ho, S. Y. W., Phillips, M. J. & Rambaut, A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4, e88 (2006).
Ferreira, M. A. R. & Suchard, M. A. Bayesian analysis of elapsed times in continuous-time Markov chains. Can. J. Stat. 36, 355–368 (2008).
Rambaut, A., Drummond, A. J., Xie, D., Baele, G. & Suchard, M. A. Posterior summarization in Bayesian phylogenetics using Tracer 1.7. Syst. Biol. 67, 901–904 (2018).
Lemey, P., Rambaut, A., Drummond, A. J. & Suchard, M. A. Bayesian phylogeography finds its roots. PLoS Comput. Biol. 5, e1000520 (2009).
Roehl, K., Jankowski, M. & Hofmeister, E. Antidog IgG secondary antibody successfully detects IgG in a variety of aquatic mammals. J. Zoo. Wildl. Med. 47, 970–976 (2016).
Harrower, M. & Brewer, C. A. ColorBrewer.Org: An online tool for selecting colour schemes for maps. Cartogr. J. 40, 27–37 (2003).
Mortimer, E. et al. Mite dispersal among the Southern Ocean Islands and Antarctica before the last glacial maximum. Proc. Biol. Sci. 278, 1247–1255 (2011).
