Article

He, Ziwen, Feng, Xiao, Chen, Qipian, Li, Liangwei, Li, Sen, Han, Kai, Guo, Zixiao, Wang, Jiayan, Liu, Min, Shi, Chengcheng, Xu, Shaohua, Shao, Shao, Liu, Xin, Mao, Xiaomeng, Xie, Wei, Wang, Xinfeng, Zhang, Rufan, Li, Guohong, Wu, Weihong, Zheng, Zheng, Zhong, Cairong, Duke, Norman C., Boufford, David E., Fan, Guangyi, Wu, Chung I., Ricklefs, Robert E., and Shi, Suhua (2022) Evolution of coastal forests based on a full set of mangrove genomes. Nature Ecology and Evolution, 6. pp. 738-749.

Garrigue, Claire, Bonnerville, Claire Daisy, Cleguer, Christophe, and Oremus, Marc (2022) Extremely Low mtDNA Diversity and High Genetic Differentiation Reveal the Precarious Genetic Status of Dugongs in New Caledonia, South Pacific. Journal of Heredity, 113 (5). pp. 516-524.

Hobbs, Jean-Paul A., Richards, Zoe T., Popovic, Iva, Lei, Chuan, Staeudle, Timo M., Montanari, Stefano R., and Dibattista, Joseph D. (2022) Hybridisation and the evolution of coral reef biodiversity. Coral Reefs, 41. pp. 535-549.

Thomas, Luke, Underwood, Jim N., Rose, Noah H., Fuller, Zachary L., Richards, Zoe T., Dugal, Laurence, Grimaldi, Camille M., Cooke, Ira R., Palumbi, Stephen, and Gilmour, James P. (2022) Spatially varying selection between habitats drives physiological shifts and local adaptation in a broadcast spawning coral on a remote atoll in Western Australia. Science Advances, 8 (17). eabl9185.

Yudina, Sophia V., Schelkunov, Mikhail I., Nauheimer, Lars, Crayn, Darren, Chantanaorrapint, Sahut, Hroneš, Michal, Sochor, Michal, Dančák, Martin, Mar, Shek-Shing, Luu, Hong Truong, Nuraliev, Maxim S., and Logacheva, Maria D. (2021) Comparative analysis of plastid genomes in the non-photosynthetic genus Thismia reveals ongoing gene set reduction. Frontiers in Plant Science, 12. 602598.

Zhang, Xiuping, Blair, David, Wolinska, Justyna, Ma, Xiaolin, Yang, Wenwu, Hu, Wei, and Yin, Mingbo (2021) Genomic regions associated with adaptation to predation in Daphnia often include members of expanded gene families. Proceedings of the Royal Society of London Series B, Biological Sciences, 288 (1955). 20210803.

Lau, Sally C. Y., Wilson, Nerida G., Silva, Catarina N. S., and Strugnell, Jan M. (2020) Detecting glacial refugia in the Southern Ocean. Ecography, 43 (11). pp. 1639-1656.

McKnight, Donald T., Carr, Leah J., Bower, Deborah S., Schwarzkopf, Lin, Alford, Ross A., and Zenger, Kyall R. (2020) Infection dynamics, dispersal, and adaptation: understanding the lack of recovery in a remnant frog population following a disease outbreak. Heredity, 125. pp. 110-123.

Suryawanshi, Ashwini, Schaefer, Karolin, Holz, Oliver, Apel, David, Lange, Ellen, Hayward, David C., Miller, David J., and Hassel, Monika (2020) What lies beneath: Hydra provides cnidarian perspectives into the evolution of FGFR docking proteins. Development Genes and Evolution, 230. pp. 227-238.

Ritschard, Elena A., Whitelaw, Brooke, Albertin, Caroline B., Cooke, Ira R., Strugnell, Jan M., and Simakov, Oleg (2019) Coupled genomic evolutionary histories as signatures of organismal innovations in Cephalopods co-evolutionary signatures across levels of genome organization may shed light on functional linkage and origin of Cephalopod novelties. BioEssays, 41. 1900073.

Wang, Jidong, Firth, Cadhla, Amos-Ritchie, Rachel, Davis, Steven S., Yin, Hong, Holmes, Edward C., Blasdell, Kim R., and Walker, Peter J. (2019) Evolutionary history of Simbu serogroup orthobunyaviruses in the Australian episystem. Virology, 535. pp. 32-44.

Shafee, Thomas, Mitchell, Michela L., and Norton, Raymond S. (2019) Mapping the chemical and sequence space of the ShKT superfamily. Toxicon, 165. pp. 95-102.

Catullo, Renee A., Yeap, Heng L., Lee, Siu F., Bragg, Jason G., Cheesman, Jodie, De Faveri, Stefano, Edwards, Owain, Hee, Alvin K.W., Popa, Angel D., Schiffer, Michele, and Oakeshott, John G. (2019) A genome-wide approach for uncovering evolutionary relationships of Australian Bactrocera species complexes (Diptera: Tephritidae). Invertebrate Systematics, 33 (4). pp. 618-627.

Malerba, Martino E., Palacios, Maria M., Palacios Delgado, Yussi M., Beardall, John, and Marshall, Dustin J. (2018) Cell size, photosynthesis and the package effect: an artificial selection approach. New Phytologist, 219 (1). pp. 449-461.

Sanchez, Gustavo, Setiamarga, Davin H.E., Tuanapaya, Surangkana, Tongtherm, Kittichai, Winkelmann, Inger E., Schmidbaur, Hannah, Umino, Tetsuya, Albertin, Caroline, Allcock, Louise, Perales-Raya, Catalina, Gleadall, Ian, Strugnell, Jan M., Simakov, Oleg, and Nabhitabhata, Jaruwat (2018) Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas. PeerJ, 6. e4331.

Dibattista, Joseph D., Alfaro, Michael E., Sorenson, Laurie, Choat, John H., Hobbs, Jean-Paul A., Sinclair-Taylor, Tane H., Rocha, Luiz A., Chang, Jonathan, Luiz, Osmar J., Cowman, Peter F., Friedman, Matt, and Berumen, Michael L. (2018) Ice ages and butterflyfishes: phylogenomics elucidates the ecological and evolutionary history of reef fishes in an endemism hotspot. Ecology and Evolution, 8 (22). pp. 10989-11008.

Lau, Quintin, Igawa, Takeshi, Kosch, Tiffany, and Satta, Yoko (2018) Selective constraint acting on TLR2 and TLR4 genes of Japanese Rana frogs. PeerJ, 6.

Liu, Huanle, Stephens, Timothy G., González-Pech, Raúl A., Beltran, Victor H., Lapeyre, Bruno, Bongaerts, Pim, Cooke, Ira, Aranda, Manuel, Bourne, David G., Forêt, Sylvain, Miller, David J., van Oppen, Madeleine J.H., Voolstra, Christian R., Ragan, Mark A., and Chan, Cheong Xin (2018) Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis. Communications Biology, 1. 95.

Harrison, Hugo B., Berumen, Michael L., Saenz-Agudelo, Pablo, Salas, Eva, Williamson, David H., and Jones, Geoffrey P. (2017) Widespread hybridization and bidirectional introgression in sympatric species of coral reef fish. Molecular Ecology, 26 (20). pp. 5692-5704.

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.

Ross, Eric, Blair, David, Guerrero-Hernández, Carlos, and Sánchez Alvarado, Alejandro (2016) Comparative and transcriptome analyses uncover key aspects of coding-and long noncoding RNAs in flatworm mitochondrial genomes. G3 Genes Genomes Genetics, 6 (5). pp. 1191-1200.

Lavery, Tyrone H., Leung, Luke K.P., and Seddon, Jennifer M. (2014) Molecular phylogeny of hipposiderid bats (Chiroptera: Hipposideridae) from Solomon Islands and Cape York Peninsula, Australia. Zoologica Scripta, 43 (5). pp. 429-442.

Macqueen, Peggy, Seddon, Jennifer M., and Goldizen, Anne W. (2012) Effects of historical forest contraction on the phylogeographic structure of Australo-Papuan populations of the red-legged pademelon (Macropodidae: Thylogale stigmatica). Austral Ecology, 37 (4). pp. 479-490.

Ansmann, Ina C., Parra, Guido J., Lanyon, Janet M., and Seddon, Jennifer M. (2012) Fine-scale genetic population structure in a mobile marine mammal: Inshore bottlenose dolphins in Moreton Bay, Australia. Molecular Ecology, 21 (18). pp. 4472-4485.

Lee, Kristen E., Seddon, Jennifer M., Johnston, Stephen, Fitzgibbon, Sean I., Carrick, Frank, Melzer, Alistair, Bercovitch, Fred, and Ellis, William (2012) Genetic diversity in natural and introduced island populations of koalas in Queensland. Australian Journal of Zoology, 60 (5). pp. 303-310.

Berggren, Karin T., and Seddon, Jennifer M. (2008) Allelic combinations of promoter and exon 2 in DQB1 in dogs and wolves. Journal of Molecular Evolution, 67 (1). pp. 76-84.

Kann, R.K.C., Kyaw-Tanner, M.T., Seddon, J.M., Lehrbach, P.R., Zwijnenberg, R.J.G., and Meers, J. (2006) Molecular subtyping of feline immunodeficiency virus from domestic cats in Australia. Australian Veterinary Journal, 84 (4). pp. 112-116.

Seddon, J.M. (2005) Canid-specific primers for molecular sexing using tissue or non-invasive samples. Conservation Genetics, 6 (1). pp. 147-149.

Vilà, Carles, Seddon, Jennifer, and Ellegren, Hans (2005) Genes of domestic mammals augmented by backcrossing with wild ancestors. Trends in Genetics, 21 (4). pp. 214-218.

Berggren, Karin T., and Seddon, Jennifer M. (2005) MHC promoter polymorphism in grey wolves and domestic dogs. Immunogenetics, 57 (3-4). pp. 267-272.

Seddon, J.M., Parker, H.G., Ostrander, E.A., and Ellegren, H. (2005) SNPs in ecological and conservation studies: A test in the Scandinavian wolf population. Molecular Ecology, 14 (2). pp. 503-511.

Seddon, J.M., and Ellegren, H. (2004) A temporal analysis shows major histocompatibility complex loci in the Scandinavian wolf population are consistent with neutral evolution. Philosophical Transactions of the Royal Society B: Biological Sciences, 271 (1554). pp. 2283-2291.

Vilà, Carles, Sundqvist, Anna Karin, Flagstad, Øystein, Seddon, Jennifer, Björnerfeldt, Susanne, Kojola, Ilpo, Casulli, Adriano, Sand, Håkan, Wabakken, Petter, and Ellegren, Hans (2003) Rescue of a severely bottlenecked wolf (Canis lupus) population by a single immigrant. Philosophical Transactions of the Royal Society B: Biological Sciences, 270 (1510). pp. 91-97.

Seddon, J.M., Santucci, F., Reeve, N., and Hewitt, G.M. (2002) Caucasus Mountains divide postulated postglacial colonization routes in the white-breasted hedgehog, Erinaceus concolor. Journal of Evolutionary Biology, 15 (3). pp. 463-467.

Seddon, Jennifer M., and Ellegren, Hans (2002) MHC class II genes in European wolves: A comparison with dogs. Immunogenetics, 54 (7). pp. 490-500.

Seddon, J. M., Santucci, F., Reeve, N. J., and Hewitt, G. M. (2001) DNA footprints of European hedgehogs, Erinaceus europaeus and E. concolor: Pleistocene refugia, postglacial expansion and colonization routes. Molecular Ecology, 10 (9). pp. 2187-2198.

Seddon, J. M., and Baverstock, P. R. (2000) Evolutionary lineages of RT1.Ba in the Australian Rattus. Molecular Biology and Evolution, 17 (5). pp. 768-772.

Seddon, J.M., and Baverstock, P.R. (1999) Variation on islands: Major histocompatibility complex (Mhc) polymorphism in populations of the Australian bush rat. Molecular Ecology, 8 (12). pp. 2071-2079.

Seddon, Jennifer M., Baverstock, Peter R., and Georges, Arthur (1998) The rate of mitochondrial 12S rRNA gene evolution is similar in freshwater turtles and marsupials. Journal of Molecular Evolution, 46 (4). pp. 460-464.

Seddon, Jennifer M., Georges, Arthur, Baverstock, Peter R., and McCord, William (1997) Phylogenetic relationships of chelid turtles (pleurodira: chelidae) based on mitochondrial 12S rRNA gene sequence variation. Molecular Phylogenetics and Evolution, 7 (1). pp. 55-61.

Thesis

Lau, Sally Cheuk Ying (2022) Quaternary evolutionary persistence of Southern Ocean benthic taxa. PhD thesis, James Cook University.