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Barnett, Leonie J., and Miller, Terrence L. (2018) Phenotypic plasticity of six unusual cercariae in nassariid gastropods and their relationships to the Acanthocolpidae and Brachycladiidae (Digenea). Parasitology International, 67 (2). pp. 225-232.

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Burgess, Treena I., White, Diane, McDougall, Keith M., Garnas, Jeff, Dunstan, William A., Català, Santiago, Carnegie, Angus J., Worboys, Stuart, Cahill, David, Vettraino, Anna-Maria, Stukely, Michael J.C., Liew, Edward C.Y., Paap, Trudy, Bose, Tanay, Migliorini, Duccio, Williams, Briony, Brigg, Frances, Crane, Colin, Rudman, Timothy, and Hardy, Giles E.St.J. (2017) Distribution and diversity of Phytophthora across Australia. Pacific Conservation Biology, 23 (2). PC16032. pp. 150-162.

Amor, Michael D., Laptikhovsky, Vladimir, Norman, Mark, and Strugnell, Jan M. (2017) Genetic evidence extends the known distribution of Octopus insularis to the mid-Atlantic islands Ascension and St Helena. Journal of the Marine Biological Association of the United Kingdom, 97 (4). pp. 753-758.

Cruz, Geyner A.S., Zizka, Georg, Silvestro, Daniele, Leme, Elton M.C., Schulte, Katharina, and Benko-Iseppon, Ana M. (2017) Molecular phylogeny, character evolution and historical biogeography of Cryptanthus Otto & A. Dietr. (Bromeliaceae). Molecular Phylogenetics and Evolution, 107. pp. 152-165.

Scheffer, S.J, Davies, K.A., Taylor, G.S., Thornhill, Andrew, Lewis, M.L., Winkler, I.S., Yeates, D.K., Purcell, M.F., Makinson, J., and Giblin-Davis, R.M. (2017) Phylogenetics of Australasian gall flies (Diptera: Fergusoninidae): evolutionary patterns of host-shifting and gall morphology. Molecular Phylogenetics and Evolution, 115. pp. 140-160.

Metsky, Hayden C., Matranga, Christian B., Wohl, Shirlee, Schaffner, Stephen F., Freije, Catherine A., Winnicki, Sarah M., West, Kendra, Qu, James, Baniecki, Mary Lynn, Gladden-Young, Adrianne, Lin, Aaron E., Tomkins-Tinch, Christopher H., Ye, Simon H., Park, Daniel J., Luo, Cynthia Y., Barnes, Kayla G., Shah, Rickey R., Chak, Bridget, Barbosa-Lima, Giselle, Delatorre, Edson, Vieira, Yasmine R., Paul, Lauren M., Tan, Amanda L., Barcellona, Carolyn M., Porcelli, Mario C., Vasquez, Chalmers, Cannons, Andrew C., Cone, Marshall R., Hogan, Kelly N., Kopp, Edgar W., Anzinger, Joshua J., Garcia, Kimberly F., Parham, Leda A., Ramírez, Rosa M.Gélvez, Montoya, Maria C.Miranda, Rojas, Diana P., Brown, Catherine M., Hennigan, Scott, Sabina, Brandon, Scotland, Sarah, Gangavarapu, Karthik, Grubaugh, Nathan D., Oliveira, Glenn, Robles-Sikisaka, Refugio, Rambaut, Andrew, Gehrke, Lee, Smole, Sandra, Halloran, M. Elizabeth, Villar, Luis, Mattar, Salim, Lorenzana, Ivette, Cerbino-Neto, Jose, Valim, Clarissa, Degrave, Wim, Bozza, Patricia T., Gnirke, Andreas, Andersen, Kristian G., Isern, Sharon, Michael, Scott F., Bozza, Fernando A., Souza, Thiago M.L., Bosch, Irene, Yozwiak, Nathan L., Macinnis, Bronwyn L., and Sabeti, Pardis C. (2017) Zika virus evolution and spread in the Americas. Nature, 546. pp. 411-415.

Cowman, Peter F., Parravicini, Valeriano, Kulbicki, Michel, and Floeter, Sergio R. (2017) The biogeography of tropical reef fishes: endemism and provinciality through time. Biological Reviews, 92 (4). pp. 2112-2130.

Karsten, Salomo, Smith, James F., Feild, Taylor S., Samain, Marie-Stephanie, Bond, Laura, Davidson, Christopher, Zimmers, Jay, Neinhuis, Christoph, and Wanke, Stefan (2017) The emergence of earliest angiosperms may be earlier than fossil evidence indicates. Systematic Botany, 42 (4). pp. 607-619.

Siqueira Correa, Alexandre C., Oliveira-Santos, Luiz Gustavo R., Cowman, Peter F., and Floeter, Sergio (2016) Evolutionary processes underlying latitudinal differences in reef fish biodiversity. Global Ecology and Biogeography, 25 (12). pp. 1466-1476.

Crous, P.W., Wingfiel, M.J., Burgess, T.I., Hardy, G.E.St.J., Crane, C., Barrett, S., Cano-Lira, J.F., Le Roux, J.J., Thangavel, R., Guarro, J., Stchigel, A.M., Martin, M.P., Alfredo, D.S., Barber, P.A., Barreto, R.W., Baseia, I.G., Cano-Canals, J., Cheewangkoon, R., Ferreira, R.J., Gené, J., Lechat, C., Moreno, G., Roets, F., Shivas, R.G., Sousa, J.O., Tan, Y.P., Wiederhold, N.P., Abell, S.E., Accioly, T., Albizu, J.L., Alves, J.L., Antoniolli, Z.I., Aplin, N., Araújo, J., Arzanlou, M., Bezerra, J.D.P., Bouchara, J-P., Carlavilla, J.R., Castillo, A., Castroagudín, V.L., Ceresini, P.C., Claridge, G.F., Coelho, G., Coimbra, V.R.M., Costa, L.A., da Cunha, K.C., da Silva, S.S., Daniel, R., de Beer, Z.W., Dueñas, M., Edwards, J., Enwistle, P., Fiuza, P.O., Fournier, J., García, D., Gibertoni, T.B., Giraud, S., Guevara-Suarez, M., Gusmão, L.F.P., Haituk, S., Heykoop, M., Hirooka, Y., Hofmann, T.A., Houbraken, J., Hughes, D.P., Kautmanová, I., Koppel, O., Koukol, O., Larsson, E., Latha, K.P.D., Lee, D.H., Lisboa, D.O., Lisboa, W.S., López-Villalba, Á., Maciel, J.L.N., Manimohan, P., Manjón, J.L., Marincowitz, S., Marney, T.S., Meijer, M., Miller, A.N., Olariaga, I., Paiva, L.M., Piepenbring, M., Poveda-Molero, J.C., Raj, K.N.A., Raja, H.A., Rougeron, A., Salcedo, I., Samadi, R., Santos, T.A.B., Scarlett, K., Seifert, K.A., Shuttleworth, L.A., Silva, G.A., Silva, M., Siqueira, J.P.Z., Souza-Motta, C.M., Stephenson, S.L., Sutton, D.A., Tamakeaw, N., Telleria, M.T., Valenzuela-Lopez, N., Viljoen, A., Visagie, C.M., Vizzini, A., Wartchow, F., Wingfield, B.D., Yurchenko, E., Zamora, J.C., and Groenewald, J.Z. (2016) Fungal Planet description sheets: 469-557. Persoonia, 37. pp. 218-403.

Muellner-Riehl, Alexandra N., Weeks, Andrea, Clayton, Joshua W., Buerki, Sven, Nauheimer, Lars, Chiang, Yu-Chung, Cody, Sarah, and Pell, Susan K. (2016) Molecular phylogenetics and molecular clock dating of Sapindales based on plastid rbcL, atpB and trnL-trnF DNA sequences. Taxon, 65 (5). pp. 1019-1036.

Laffan, Shawn W., Rosauer, Dan F., Di Virgilio, Giovanni, Miller, Joseph T., González-orozco, Carlos E., Knerr, Nunzio, Thornhill, Andrew H., and Mishler, Brent D. (2016) Range-weighted metrics of species and phylogenetic turnover can better resolve biogeographic transition zones. Methods in Ecology and Evolution, 7 (5). pp. 580-588.

Boyero, Luz, Pearson, Richard G., Hui, Cang, Gessner, Mark, Pérez, Javier, Alexandrou, Markos A., Graça, Manuel A.S., Cardinale, Bradley J., Albariño, Ricardo J., Arunachalam, Muthukumarasamy, Barmuta, Leon A., Boulton, Andrew J., Bruder, Andreas, Callisto, Marcos, Chauvet, Eric, Death, Russell G., Dudgeon, David, Encalada, Andrea C., Ferreira, Verónica, Figueroa, Ricardo, Flecker, Alexander S., Goncalves, José F., Helson, Julie, Iwata, Tomoya, Jinggut, Tajang, Mathooko, Jude, Mathuriau, Catherine, M'Erimba, Charles, Moretti, Marcelo S., Pringle, Catherine M., Ramírez, Alonso, Ratnarajah, Lavenia, Rincon, José, and Yule, Catherine M. (2016) Biotic and abiotic variables influencing plant litter breakdown in streams: a global study. Proceedings of the Royal Society of London Series B: biological sciences, 283 (1829). 20152664. pp. 1-10.

Moya, Aurelie, Sakamaki, Kazuhiro, Mason, Benjamin M., Huisman, Lotte, Forêt, Sylvain, Weiss, Yvonne, Bull, Tara, Tomii, Kentaro, Imai, Kenichiro, Hayward, David C., Ball, Eldon E., and Miller, David J. (2016) Functional conservation of the apoptotic machinery from coral to man: the diverse and complex Bcl-2 and caspase repertoires of Acropora millepora. BMC Genomics, 17. 62. pp. 1-20.

Rummer, Jodie L., and Munday, Philip L. (2016) Climate change and the evolution of reef fishes: past and future. Fish and Fisheries, 18 (1). pp. 22-39.

Shafee, Thomas, and Cooke, Ira (2016) AlignStat: a web-tool and R package for statistical comparison of alternative multiple sequence alignments. BMC Bioinformatics, 17 (1). pp. 1-6.

Costion, Craig M., Lowe, Andrew J., Rossetto, Maurizio, Kooyman, Robert M., Breed, Martin F., Ford, Andrew, and Crayn, Darren M. (2016) Building a plant DNA barcode reference library for a diverse tropical flora: an example from Queensland, Australia. Diversity, 8 (1). pp. 1-5.

Shivas, Roger G., Tan, Yu Pei, Edwards, Jacqueline, Dinh, Quang, Maxwell, Aaron, Andjic, Vera, Liberato, José R., Anderson, Chris, Beasley, Dean R., Bransgrove, Kaylene, Coates, Lindy M., Cowan, Karren, Daniel, Rosalie, Dean, Jan R., Lomavatu, Mereia Fong, Mercado-Escueta, Doris, Mitchell, Roger W., Thangavel, Raja, Tran-Nguyen, Lucy T.T., and Weir, Bevan S. (2016) Colletotrichum species in Australia. Australasian Plant Pathology, 45 (5). pp. 447-464.

Thornhill, Andrew H., Mishler, Brent D., Knerr, Nunzio J., González-Orozco, Carlos E., Costion, Craig M., Crayn, Darren M., Laffan, Shawn W., and Miller, Joseph T. (2016) Continental-scale spatial phylogenetics of Australian angiosperms provides insights into ecology, evolution and conservation. Journal of Biogegoraphy, 43 (11). pp. 2085-2098.

Berthe, Cécile, Mourier, Johann, Lecchini, David, Rummer, Jodie L., Sellos, Daniel Y., and Iglésias, Samuel P. (2016) DNA barcoding supports the presence of the cryptic ocellated eagle ray, Aetobatus ocellatus (Myliobatidae), in French Polynesia, South Pacific. Cybium, 40 (2). pp. 181-184.

Goetze, Márcia, Schulte, Katharina, Palma-Silva, Clarisse, Zanella, Camila M., Buttow, Miriam V., Capra, Fernanda, and Bered, Fernanda (2016) Diversification of Bromelioideae (Bromeliaceae) in the Brazilian Atlantic rainforest: a case study in Aechmea subgenus Ortgiesia. Molecular Phylogenetics and Evolution, 98. pp. 346-357.

Brown, Simon, Pedley, Kevin C., and Simcock, David C. (2016) Estimation of surface area and volume of a nematode from morphometric data. Scientifica, 2016. 6767538. pp. 1-7.

van der Merwe, Marlien, Crayn, Darren M., Ford, Andrew J., Weston, Peter H., and Rossetto, Maurizio (2016) Evolution of Australian Cryptocarya (Lauraceae) based on nuclear and plastid phylogenetic trees: evidence of recent landscape-level disjunctions. Australian Systematic Botany, 29 (2). pp. 157-166.

Das, Shubhagata, Sarker, Subir, Peters, Andrew, Ghorashi, Seyed A., Phalen, David, Forwood, Jade K., and Raidal, Shane R. (2016) Evolution of circoviruses in lorikeets lags behind its hosts. Molecular Phylogenetics and Evolution, 100. pp. 281-291.

Coelho de Souza, Fernando, Dexter, Kyle G., Phillips, Oliver L., Brienen, Roel J.W., Chave, Jerome, Galbraith, David R., López-gonzález, Gabriela, Mendoza, Abel Monteagudo, Pennington, R. Toby, Poorter, Lourens, Alexiades, Miguel, Esteban, Álvarez-Dávila, Andrade, Ana, Aragão, Luis E.O.C., Araujo-Murakami, Alejandro, Arets, Eric J.M.M., Aymard C., Gerardo A., Baraloto, Christopher, Barroso, Jorcely G., Bonal, Damien, Boot, Rene G.A., Camargo, José L.C., Comiskey, James A., Valverde, Fernando Cornejo, de Camargo, Plinio B., Di Fore, Anthony, Elias, Fernando, Erwin, Terry L., Feldpausch, Ted R., Ferreira, Leandro, Fyllas, Nikolaos, Gloor, Emanuel, Herault, Bruno, Herrera, Rafael, Higuchi, Niro, Honorio Coronado, Eurídice N., Killeen, Timothy J., Laurance, William F., Laurance, Susan, Lloyd, Jon, Lovejoy, Thomas, Malhi, Yadvinder, Maracahipes, Leandro, Marimon, Beatriz S., Marimon-Junior, Ben H., Mendoza, Casimiro, Morandi, Paulo, Neill, David A., Núñez Vargas, Percy, De Oliveira, Edmar A., Lenza, Eddie, Palacios, Water A. , Peñuela-Mora, Maria C., Pipoly, John J., Pitman, Nigel A., Prieto, Adriana, Quesada, Carlos A., Ramírez-Angulo, Hirma, Rudas, Agustín, Ruokolainen, Kalle, Salomão, Rafael P., Silveira, Marcos, Stropp, Juliana, ter Steege, Hans, Thomas-Caesar, Raquel, van der Hout, Peter, van der Heijden, Geertje M.F., van der Meer, Peter J., Vásquez, Rodolfo V., Vieira, Simone A., Vilanova, Emilio, Vos, Vincent A., Wang, Ophelia, Young, Kenneth R., Zagt, Roderick, J. , and Baker, Timothy R. (2016) Evolutionary heritage influences Amazon tree ecology. Proceedings of the Royal Society of London Series B, Biological Sciences, 283. 20161587. pp. 1-10.

Sarker, Subir, Lloyd, Chris, Forwood, Jade, and Raidal, Shane R. (2016) Forensic genetic evidence of beak and feather disease virus infection in a Powerful Owl, Ninox strenua. Emu, 116 (1). pp. 71-74.

Rummer, Jodie L., Binning, Sandra A., Roche, Dominique G., and Johansen, Jacob L. (2016) Methods matter: considering locomotory mode and respirometry technique when estimating metabolic rates of fishes. Conservation Physiology, 4 (1). cow008. pp. 1-13.

Gagul, Janet (2016) Molecular phylogenetics of Elaeocarpus L. (Elaeocarpaceae) with a focus on New Guinea species. Australasian Systematic Botany Society Newsletter, 167. pp. 4-8.

Brozynska, Marta, Copetti, Dario, Furtado, Agnelo, Wing, Rod, Crayn, Darren, Fox, Glen, Ishikawa, Ryuji, and Henry, Robert J. (2016) Sequencing of Australian wild rice genomes reveals ancestral relationships with domesticated rice. Plant Biotechnology Journal, 15 (6). pp. 765-774.

Sarker, S., Forwood, J.K., Ghorashi, S.A., Peters, A., and Raidal, S.R. (2015) Beak and feather disease virus genotypes in Australian parrots reveal flexible host-switching. Australian Veterinary Journal, 93 (12). pp. 471-475.

Sarker, Subir, Moylan, Kathy G., Ghorashi, Seyed A., Forwood, Jade K., Peters, Andrew, and Raidal, Shane R. (2015) Evidence of a deep viral host switch event with beak and feather disease virus infection in rainbow bee-eaters (Merops ornatus). Scientific Reports, 5. 14511.

Book Chapter

Blair, David (2019) Paragonimiasis. In: Toledo, Rafael, and Fried, Bernard, (eds.) Digenetic Trematodes. Advances in Experimental Medicine and Biology, 1154 . Springer Nature Switzerland AG, Cham, Switzerland, pp. 105-138.

Clarke, Charles, Schlauer, Jan, Moran, Jonathan A., and Robinson, Alastair (2018) Systematics and evolution of Nepenthes. In: Ellison, Aaron M., and Adamec, Lubomír, (eds.) Carnivorous Plants: physiology, ecology, and evolution. Oxford University Press, New York, NY, USA, pp. 58-69.

Conference Item

Meehan, Michael T., Henderson, Alec S., Steinig, Eike, McBryde, Emma S., and Duchene, Sebastian (2023) Replicating superspreader dynamics with birth-death phylodynamic models. In: [Presented at the 9th International Conference on Infectious Disease Dynamics]. From: Epidemics 9: 9th International Conference on Infectious Disease Dynamics, 28 November - 1 December 2023, Bologna, Italy.

Thesis

O'Brien, Paul (2022) Host-microbe symbiosis and coevolution in coral reef invertebrates. PhD thesis, James Cook University.

Horowitz, Jeremy (2022) The taxonomy, biodiversity, and evolutionary history of black corals (order Antipatharia). PhD thesis, James Cook University.

Joyce, Elizabeth Marie (2021) Evolution of the northern Australian flora: role of the Sunda-Sahul Floristic Exchange. PhD thesis, James Cook University.

Simpson, Lalita (2019) Phylogenomic insights into the spatio-temporal evolution of the Asian and Australasian Bulbophyllum (Orchidaceae). PhD thesis, James Cook University.