Costa, Vincenzo A., Bellwood, David R., Mifsud, Jonathon C.O., Van Brussel, Kate, Geoghegan, Jemma L., Holmes, Edward C., and Harvey, Erin (2023) Limited cross-species virus transmission in a spatially restricted coral reef fish community. Virus Evolution, 9 (1). vead011.

Wille, Michelle, Grillo, Victoria, de Gouvea Pedroso, Silvia Ban, Burgess, Graham W., Crawley, Allison, Dickason, Celia, Hansbro, Phillip M., Hoque, Md. Ahasanul, Horwood, Paul F., Kirkland, Peter, Kung, Nina, Lynch, Stacey, Martin, Sue, McArthur, Michaela, O'Riley, Kim, Read, Andrew, Warner, Simone, Hoye, Bethany J., Lisovski, Simeon, Leen, Trent, Hurt, Aeron C., Butler, Jeff, Broz, Ivano, Davies, Kelly R., Mileto, Patrick, Neave, Matthew J., Stevens, Vicky, Breed, Andrew C., Lam, Tommy T.L., Holmes, Edward C., Klaassen, Marcel, and Wong, Frank Y.K. (2022) Australia as a global sink for the genetic diversity of avian influenza A virus. PLoS Pathogens, 18 (5). e1010150.

Van Brussel, Kate, Mahar, Jackie E., Ortiz-Baez, Ayda Susana, Carrai, Maura, Spielman, Derek, Boardman, Wayne S.J., Baker, Michelle L., Beatty, Julia A., Geoghegan, Jemma L., Barrs, Vanessa R., and Holmes, Edward C. (2022) Faecal virome of the Australian grey-headed flying fox from urban/ suburban environments contains novel coronaviruses, retroviruses and sapoviruses. Virology, 576. pp. 42-51.

Wang, Xiuwan, Carrai, Maura, Van Brussel, Kate, Feng, Shuo, Beatty, Julia A., Shi, Mang, Holmes, Edward C., Li, Jun, and Barrs, Vanessa R. (2022) Low Intrahost and Interhost Genetic Diversity of Carnivore Protoparvovirus 1 in Domestic Cats during a Feline Panleukopenia Outbreak. Viruses, 14 (7). pp. 1412-1422.

Van Brussel, Kate, Wang, Xiuwan, Shi, Mang, Carrai, Maura, Feng, Shuo, Li, Jun, Holmes, Edward C., Beatty, Julia A., and Barrs, Vanessa R. (2022) The enteric virome of cats with feline panleukopenia differs in abundance and diversity from healthy cats. Transboundary and Emerging Diseases, 69 (5). e2952-e2966.

Bordicchia, Matteo, Fumian, Tulio Machado, Van Brussel, Kate, Russo, Alice G., Carrai, Maura, Le, Shi-Jia, Pesavento, Patricia A., Holmes, Edward C., Martella, Vito, White, Peter, Beatty, Julia A., Shi, Mang, and Barrs, Vanessa R. (2021) Feline Calicivirus Virulent Systemic Disease: Clinical Epidemiology, Analysis of Viral Isolates and In Vitro Efficacy of Novel Antivirals in Australian Outbreaks. Viruses, 13 (10). 2040.

Geoghegan, Jemma L., Di Giallonardo, Francesca, Wille, Michelle, Ortiz-Baez, Ayda Susana, Costa, Vincenzo A., Ghaly, Timothy, Mifsud, Jonathon C.O., Turnbull, Olivia M.H., Bellwood, David R., Williamson, Jane E., and Holmes, Edward . (2021) Virome composition in marine fish revealed by meta-transcriptomics. Virus Evolution, 7 (1). veab005.

Chang, Wei-Shan, Eden, John-Sebastian, Hall, Jane, Shi, Mang, Rose, Karrie, and Holmes, Edward C. (2020) Metatranscriptomic analysis of virus diversity in urban wild birds with paretic disease. Journal of Virology, 94 (18). e00606-20.

Quan, Phenix-Lan, Firth, Cadhla, Conte, Juliette M., Williams, Simon H., Zambrana-Torrelio, Carlos M., Anthony, Simon J., Ellison, James A., Gilbert, Amy T., Kuzmin, Ivan V., Niezgoda, Michael, Osinubi, Modupe O.V., Recuenco, Sergio, Markotter, Wanda, Breiman, Robert F., Kalemba, Lems, Malekani, Jean, Lindblade, Kim A., Rostal, Melinda K., Ojeda-Flores, Rafael, Suzan, Gerardo, Davis, Lora B., Blau, Dianna M., Ogunkoya, Albert B., Alvarez Castillo, Danilo A., Moran, David, Ngam, Sali, Akaibe, Dudu, Agwanda, Bernard, Briese, Thomas, Epstein, Jonathan H., Daszak, Peter, Rupprecht, Charles E., Holmes, Edward C., and Lipkin, W. Ian (2013) Bats are a major natural reservoir for hepaciviruses and pegiviruses. Proceedings of the National Academy of Sciences of the United States of America, 110 (20). pp. 8194-8199.

Pagán, Israel, Firth, Cadhla, and Holmes, Edward C. (2010) Phylogenetic Analysis Reveals Rapid Evolutionary Dynamics in the Plant RNA Virus Genus Tobamovirus. Journal of Molecular Evolution, 71. pp. 298-307.

Firth, Cadhla, Kitchen, Andrew, Shapiro, Beth, Suchard, Marc A., Holmes, Edward C., and Rambaut, Andrew (2010) Using Time-Structured Data to Estimate Evolutionary Rates of Double-Stranded DNA Viruses. Molecular Biology and Evolution, 27 (9). pp. 2038-2051.

Sall, Amadou A., Faye, Ousmane, Diallo, Mawlouth, Firth, Cadhla, Kitchen, Andrew, and Holmes, Edward C. (2010) Yellow Fever Virus Exhibits Slower Evolutionary Dynamics than Dengue Virus. Journal of Virology, 84 (2). pp. 765-772.

Firth, Cadhla, Charleston, Michael A., Duffy, Siobain, Shapiro, Beth, and Holmes, Edward C. (2009) Insights into the Evolutionary History of an Emerging Livestock Pathogen: Porcine Circovirus 2. Journal of Virology, 83 (24). pp. 12813-12821.