Article

Herrera, Marcela, Ravasi, Timothy, and Laudet, Vincent (2023) Anemonefishes: A model system for evolutionary genomics. F1000Research, 12. 204.

Pei, Yingbing, Deng, Zhixiong, Zhang, Xiuping, Blair, David, Hu, Wei, and Yin, Mingbo (2023) Chromosome-scale genome assembly of the freshwater cladoceran crustacean Chydorus sphaericus: A resource for discovery of genes responsive to ecological challenges. Aquatic Toxicology, 260. 106565.

Sarker, Subir (2023) Complete Mitochondrial Genome Sequence of an Australian Little Crow (Corvus bennetti). Microbiology Resource Announcements, 12 (5). e01367-22.

Bertola, Lorenzo V., Higgie, Megan, Zenger, Kyall R., and Hoskin, Conrad J. (2023) Conservation genomics reveals fine-scale population structuring and recent declines in the Critically Endangered Australian Kuranda Treefrog. Conservation Genetics, 24. pp. 249-264.

Matias, Ambrosio Melvin A., Popovic, Iva, Thia, Joshua A., Cooke, Ira R., Torda, Gergely, Lukoschek, Vimoksalehi, Bay, Line, Kim, Sun, and Riginos, Cynthia (2023) Cryptic diversity and spatial genetic variation in the coral Acropora tenuis and its endosymbionts across the Great Barrier Reef. Evolutionary Applications, 16 (2). pp. 293-310.

Lin, Ya-Ping, Chen, Hung-Wei, Yeh, Pei-Min, Anand, Shashi S., Lin, Jiunn, Li, Juan, Noble, Thomas, Nair, Ramakrishnan, Schafleitner, Roland, Samsononova, Maria, Bishop-von-Wettberg, Eric, Nuzhdin, Sergey, Ting, Chau-Ti, Lawn, Robert J., and Lee, Cheng-Ruei (2023) Demographic history and distinct selection signatures of two domestication genes in mungbean. Plant Physiology, 193 (2). pp. 1197-1212.

Nargar, Katharina, and Chen, Jen Tsung (2023) Editorial: Orchid genomics and developmental biology, volume II. Frontiers in Plant Science, 14. 1136350.

Taite, M., Fernández-Álvarez, F.A., Braid, H.E., Bush, S.L., Bolstad, K., Drewery, J., Mills, S., Strugnell, J.M., Vecchione, M., Villanueva, R., Voight, J.R., and Allcock, A.L. (2023) Genome skimming elucidates the evolutionary history of Octopoda. Molecular Phylogenetics and Evolution, 182. 107729.

Hill, Erin, Murphy, Nicholas, Linacre, Adrian, Toop, Simon, and Strugnell, Jan M. (2023) Kinship analysis reveals low dispersal in a hog deer (Axis porcinus) population in Wilsons Promontory National Park, Australia. Wildlife Research, 50 (8-9). pp. 746-756.

Sutherland, M., and Sarker, S. (2023) Liver virome of a Little Corella (Cacatua sanguinea) reveals coinfection with a novel parvovirus and two beak and feather disease viruses. Australian Veterinary Journal. (In Press)

Le, Thanh Hoa, Nguyen, Khue Thi, Pham, Linh Thi Khanh, Doan, Huong Thi Thanh, Roan, Do Thi, Le, Xuyen Thi Kim, Agatsuma, Takeshi, and Blair, David (2023) Mitogenomic and nuclear ribosomal transcription unit datasets support the synonymy of Paragonimus iloktsuenensis and P. ohirai (Paragonimidae: Platyhelminthes). Parasitology Research, 122. pp. 1531-1544.

Sarker, Subir, and Raidal, Shane R. (2023) A Novel Pathogenic Avipoxvirus Infecting Vulnerable Cook’s Petrel (Pterodroma cookii) in Australia Demonstrates a High Genomic and Evolutionary Proximity with South African Avipoxviruses. Microbiology Spectrum, 11 (2).

Irimia, Ramona E., Montesinos, Daniel, Chaturvedi, Anurag, Sanders, Ian, Hierro, José L., Sotes, Gastón, Cavieres, Lohengrin A., Eren, Özkan, Lortie, Christopher J., French, Kristine, and Brennan, Adrian Christopher (2023) Trait evolution during a rapid global weed invasion despite little genetic differentiation. Evolutionary Applications, 16 (5). pp. 997-1011.

Hua, Qiaz Q.H., Thomson, Vicki A., Strugnell, Jan M., Martino, Jasmin C., Gillanders, Bronwyn M., and Doubleday, Zoe A. (2023) Using genomics and morphometrics to monitor data-poor and commercially exploited octopod populations. Marine Biology, 170 (10). 119.

White, Rhys T., Taylor, William, Klukowski, Natalie, Vaughan-Higgins, Rebecca, Williams, Ernest, Petrovski, Steve, Rose, Jayson J.A., and Sarker, Subir (2023) A discovery down under: decoding the draft genome sequence of Pantoea stewartii from Australia's Critically Endangered western ground parrot / kyloring (Pezoporus flaviventris). Microbial Genomics, 9 (9).

White, Rhys T., Jelocnik, Martina, Klukowski, Natalie, Haque, Md Hakimul, and Sarker, Subir (2023) The first genomic insight into Chlamydia psittaci sequence type (ST)24 from a healthy captive psittacine host in Australia demonstrates evolutionary proximity with strains from psittacine, human, and equine hosts. Veterinary Microbiology, 280. 109704.

Sarker, Subir, Athukorala, Ajani, and Phalen, David N. (2022) Characterization of a Near-Complete Genome Sequence of a Chaphamaparvovirus from an Australian Boobook Owl (Ninox boobook). Microbiology Resource Announcements, 11 (5). e00249-22.

Sarker, Subir (2022) Characterization of a Novel Complete-Genome Sequence of a Galliform Chaphamaparvovirus from a Free-Range Laying Chicken Clinically Diagnosed with Spotty Liver Disease. Microbiology Resource Announcements, 11 (11). e01017-22.

Sarker, Subir, Haque, Md. Hakimul, Nath, Babu Kanti, Talukder, Saranika, Lavers, Jennifer L., and Raidal, Shane R. (2022) Complete Mitochondrial Genome Sequence of a Seabird, Wedge-Tailed Shearwater (Ardenna pacifica). Microbiology Resource Announcements, 11 (2). e01191-21.

Villacorta Rath, Cecilia, Green, Bridget S., Gardner, Caleb, Murphy, Nick P., Souza, Carla A., and Strugnell, Jan M. (2022) Disentangling genetic from environmental effects on phenotypic variability of Southern rock lobster (Jasus edwardsii) postlarvae. Ecology and Evolution, 12 (11). e9519.

Strugnell, Jan M., Mcgregor, Helen, Wilson, Nerida G., Meredith, Karina T., Chown, Steven L., Lau, Sally C.Y., Robinson, Sharon A., and Saunders, Krystyna M. (2022) Emerging biological archives can reveal ecological and climatic change in Antarctica. Global Change Biology, 28 (22). pp. 6483-6508.

Khalilisamani, Nima, Thomson, Peter, Raadsma, Herman Willem, and Khatkar, Mehar Singh (2022) Estimating heritability using family-pooled phenotypic and genotypic data: a simulation study applied to aquaculture. Heredity, 128 (3). pp. 178-186.

Sarker, Subir, Bowden, Timothy R., and Boyle, David B. (2022) Evidence of a Possible Viral Host Switch Event in an Avipoxvirus Isolated from an Endangered Northern Royal Albatross (Diomedea sanfordi). Viruses, 14 (2). 302.

Kosch, Tiffany A., Waddle, Anthony W., Cooper, Caitlin A., Zenger, Kyall R., Garrick, Dorian J., Berger, Lee, and Skerratt, Lee F. (2022) Genetic approaches for increasing fitness in endangered species. Trends in Ecology & Evolution, 37 (4). pp. 332-345.

Sarker, Subir, Athukorala, Ajani, and Phalen, David N. (2022) Genome Sequence of a Beak and Feather Disease Virus from an Unusual Novel Host, Australian Boobook Owl (Ninox boobook). Microbiology Resource Announcements, 11 (4). e00172-22.

Omeka, W.K.M., Liyanage, D.S., Lee, Sukkyoung, Lim, Chaehyeon, Yang, Hyerim, Sandamalika, W.M.Gayashani, Udayantha, H.M.V., Kim, Gaeun, Ganeshalingam, Subothini, Jeong, Taehyug, Oh, Seong-Rip, Won, Seung-Hwan, Koh, Hyoung-Bum, Kim, Mun-Kwan, Jones, David B., Massault, Cecile, Jerry, Dean R., and Lee, Jehee (2022) Genome-wide association study (GWAS) of growth traits in olive flounder (Paralichthys olivaceus). Aquaculture, 555. 738257.

Liyanage, D.S., Lee, Sukkyoung, Yang, Hyerim, Lim, Chaehyeon, Omeka, W.K.M., Sandamalika, W.M. Gayashani, Udayantha, H.M.V., Kim, Gaeun, Ganeshalingam, Subothini, Jeong, Taehyug, Oh, Seong-Rip, Won, Seung-Hwan, Koh, Hyoung-Bum, Kim, Mun-Kwan, Jones, David B., Massault, Cecile, Jerry, Dean R., and Lee, Jehee (2022) Genome-wide association study of VHSV-resistance trait in Paralichthys olivaceus. Fish and Shellfish Immunology, 124. pp. 391-400.

Viering, Daan, Schlingmann, Karl-Peter, Hureaux, Marguerite, Nijhenhuis, Tom, Mallett, Andrew, Chan, Melanie MY, van Beek, André, van Eerde, Albertien M, Coulibaly, Jean-Marie, Vallet, Marion, Decramer, Stéphane, Pelletier, Solenne, Klaus, Günter, Komhoff, Martin, Beetz, Rolf, Patel, Chirag, Shenoy, Mohan, Steenbergen, Eric J., Anderson, Glenn, Bongers, Ernie M.H.F., Bermann, Carsten, Penneman, Daan, Rodenburg, Richard J., Kleta, Robert, Houillier, Pascal, Konrad, Martin, Vargas-Poussou, Rosa, Knoers, Nine, Bockenhauer, Detlef, de Baaij, Jeroen, and Genomics England Research Consortium, (2022) Gitelman-like syndrome caused by pathogenic variants in mtDNA. Journal of the American Society of Nephrology, 33 (2). pp. 305-325.

Soraru, Jacqueline, Jahan, Sadia, Quinlan, Catherine, Simons, Cas, Wardrop, Louise, O’Shea, Rosie, Wood, Alasdair, Mallawaarachchi, Amali, Patel, Chirag, Stark, Zornitza, and Mallett, Andrew John (2022) The HIDDEN Protocol: An Australian Prospective Cohort Study to Determine the Utility of Whole Genome Sequencing in Kidney Failure of Unknown Aetiology. Frontiers in Medicine, 9. 891223.

Justine, Jean Lou, Gastineau, Romain, Gros, Pierre, Gey, Delphine, Ruzzier, Enrico, Charles, Laurent, and Winsor, Leigh (2022) Hammerhead flatworms (Platyhelminthes, Geoplanidae, Bipaliinae): mitochondrial genomes and description of two new species from France, Italy, and Mayotte. PeerJ, 10. e12725.

Sarker, Subir, and Sutherland, Michelle (2022) Molecular characterisation of a novel pathogenic avipoxvirus from an Australian little crow (Corvus bennetti) directly from the clinical sample. Scientific Reports, 12 (1). 15053.

Schmidt, Casey A., Cooke, Ira, Wilson, David T., Miller, David J., Peigneur, Steve, Tytgat, Jan, Field, Matthew, Takjoo, Rozita, Smout, Michael J., Loukas, Alex, and Daly, Norelle L. (2022) Newly Discovered Peptides from the Coral Heliofungia actiniformis Show Structural and Functional Diversity. Journal of Natural Products, 85 (7). pp. 1789-1798.

Alele, Faith O., Otto, John R., Malau-Aduli, Bunmi S., and Malau-Aduli, Aduli E.O. (2022) Next Generation Sequencing of Genotype Variants and Genetic Association between Heat Shock Proteins HSPA1B Single Nucleotide Polymorphism at the g.31829044 Locus and Heat Tolerance: A Pilot Quasi-Experimental Study. Biomolecules, 12 (10). 1465.

Tea, Yi-Kai, Xu, Xin, Dibattista, Joseph D., Lloyd, Jonathan, Cowman, Peter F., and Ho, Simon Y.W. (2022) Phylogenomic Analysis of Concatenated Ultraconserved Elements Reveals the Recent Evolutionary Radiation of the Fairy Wrasses (Teleostei: Labridae: Cirrhilabrus). Systematic Biology, 71 (1). pp. 1-12.

Jerry, Dean R., Jones, David B., Lillehammer, Marie, Massault, Cecile, Loughnan, Shannon, Cate, Holly S., Harrison, Paul J., Strugnell, Jan M., Zenger, Kyall R., and Robinson, Nicholas A. (2022) Predicted strong genetic gains from the application of genomic selection to improve growth related traits in barramundi (Lates calcarifer). Aquaculture, 549. 737761.

Ying, Hua, Hayward, David C., Klimovich, Alexander, Bosch, Thomas C.U., Baldassarre, Laura, Neeman, Teresa, Foret, Sylvain, Huttley, Gavin, Reitzel, Adam M., Fraune, Sebastian, Ball, Eldon E., and Miller, David (2022) The Role of DNA Methylation in Genome Defense in Cnidaria and Other Invertebrates. Molecular Biology and Evolution, 39 (2). msac018.

Nguyen, Nguyen Hong, and Vu, Nguyen Thanh (2022) Threshold models using Gibbs sampling and machine learning genomic predictions for skin fluke disease recorded under field environment in yellowtail kingfish Seriola lalandi. Aquaculture, 547. 737513.

Le, Thanh Hoa, Nguyen, Khue Thi, Pham, Linh Thi Khanh, Doan, Huong Thi Thanh, Agatsuma, Takeshi, and Blair, David (2022) The complete mitogenome of the Asian lung fluke Paragonimus skrjabini miyazakii and its implications for the family Paragonimidae (Trematoda: Platyhelminthes). Parasitology, 149 (13). pp. 1709-1719.

Mallett, Andrew J., Knoers, Nine, Sayer, John, and Stark, Zornitza (2021) Clinical versus research genomics in kidney disease. Nature Reviews Nephrology, 17 (9). pp. 570-571.

Sarker, Subir, Isberg, Sally R., Athukorala, Ajani, Mathew, Ravi, Capati, Nolasco, Haque, Md. Hakimul, and Helbig, Karla J. (2021) Characterization of a Complete Genome Sequence of Molluscum Contagiosum Virus from an Adult Woman in Australia. Microbiology Resource Announcements, 10 (1). e00939-20.

Sarker, Subir, Nath, Babu Kanti, Talukder, Saranika, and Raidal, Shane R. (2021) Complete Mitochondrial Genome Sequence of the Magpie-Lark (Grallina cyanoleuca). Microbiology Resource Announcements, 10 (24). e00342.

Wagner, Natascha D., Clements, Mark A., Simpson, Lalita, and Nargar, Katharina (2021) Conservation in the face of hybridisation: genome-wide study to evaluate taxonomic delimitation and conservation status of a threatened orchid species. Conservation Genetics, 22. pp. 151-168.

Jayasinghe, Kushani, Wu, You, Stark, Zornitza, Kerr, Peter G., Mallett, Andrew J., Gaff, Clara, Martyn, Melissa, Goranitis, Ilias, and Quinlan, Catherine (2021) Cost-effectiveness of targeted exome analysis as a diagnostic test in glomerular diseases. Kidney International Reports, 6 (11). pp. 2850-2861.

Sarker, Subir, Hannon, Christabel, Athukorala, Ajani, and Bielefeldt-Ohmann, Helle (2021) Emergence of a novel pathogenic poxvirus infection in the endangered green sea turtle (Chelonia mydas) highlights a key threatening process. Viruses, 13 (2). 219.

Athukorala, Ajani, Phalen, David N., Das, Ashutosh, Helbig, Karla J., Forwood, Jade K., and Sarker, Subir (2021) Genomic Characterisation of a Highly Divergent Siadenovirus (Psittacine Siadenovirus F) from the Critically Endangered Orange-Bellied Parrot (Neophema chrysogaster). Viruses, 13 (9). 1714.

Sarker, Subir, Athukorala, Ajani, Nyandowe, Tadiwa, Bowden, Timothy R., and Boyle, David B. (2021) Genomic Characterisation of a Novel Avipoxvirus Isolated from an Endangered Northern Royal Albatross (Diomedea sanfordi). Pathogens, 10 (5). 575.

Sarker, Subir, Athukorala, Ajani, Bowden, Timothy R., and Boyle, David B. (2021) Genomic Characterisation of a Novel Avipoxvirus Isolated from an Endangered Yellow-Eyed Penguin (Megadyptes antipodes). Viruses, 13 (2). 194.

Sarker, Subir, Bowden, Timothy R., and Boyle, David B. (2021) Genomic characterisation of a novel avipoxvirus, magpiepox virus 2, from an Australian magpie (Gymnorhina tibicen terraereginae). Virology, 562. pp. 121-127.

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.

Sweet, Michael, Villela, Helena, Keller-Costa, Tina, Costa, Rodrigo, Romano, Stefano, Bourne, David G., Cárdenas, Anny, Huggett, Megan J., Kerwin, Allison H., Kuek, Felicity, Medina, Monica, Meyer, Julie L., Müller, Moritz, Pollock, F. Joseph, Rappé, Michael S., Sere, Mathieu, Sharp, Koty H., Voolstra, Christian R., Zaccardi, Nathan, Ziegler, Maren, and Peixoto, Raquel (2021) Insights into the cultured bacterial fraction of corals. mSystems, 6 (3). e01249-20.

Sarker, Subir (2021) Molecular and Phylogenetic Characterisation of a Highly Divergent Novel Parvovirus (Psittaciform Chaphamaparvovirus 2) in Australian Neophema Parrots. Pathogens, 10 (12). 1559.

Sarker, Subir, Athukorala, Ajani, and Raidal, Shane R. (2021) Molecular characterisation of a novel pathogenic avipoxvirus from an Australian passerine bird, mudlark (Grallina cyanoleuca). Virology, 554. pp. 66-74.

Mallett, Andrew (2021) Monogenic nephrolithiasis-collision of phenotypes, genotypes, and phenocopies. Kidney International Reports, 6 (11). pp. 2737-2739.

Huaman, Jose L., Pacioni, Carlo, Sarker, Subir, Doyle, Mark, Forsyth, David M., Pople, Anthony, Carvalho, Teresa G., and Helbig, Karla J. (2021) Novel Picornavirus Detected in Wild Deer: Identification, Genomic Characterisation, and Prevalence in Australia. Viruses, 13 (12). 2412.

Sarker, Subir, Athukorala, Ajani, Talukder, Saranika, Haque, Md Hakimul, Helbig, Karla, Lavers, Jennifer L., and Raidal, Shane R. (2021) Resolution of the phylogenetic relationship of the vulnerable flesh-footed shearwater (Ardenna carneipes) seabird using a complete mitochondrial genome. Mitochondrial DNA Part B: Resources, 6 (4). pp. 1507-1511.

Massault, C., Jones, D.B., Zenger, K., Strugnell, J.M., Barnard, R., and Jerry, D.R. (2021) A SNP parentage assignment panel for the silver lipped pearl oyster (Pinctada maxima). Aquaculture Reports, 20. 100687.

Calcino, Andrew D., Kenny, Nathan J., and Gerdol, Marco (2021) Single individual structural variant detection uncovers widespread hemizygosity in molluscs. Philosophical Transactions of the Royal Society B: Biological Sciences, 376 (1825). 20200153.

Whitelaw, Brooke L., Cooke, Ira R., Finn, Julian, da Fonseca, Rute R., Ritschard, Elena A., Gilbert, M. T. P., Simakov, Oleg, and Strugnell, Jan M. (2020) Adaptive venom evolution and toxicity in octopods is driven by extensive novel gene formation, expansion, and loss. GigaScience, 9 (11). giaa120.

Fuller, Zachary L., Mocellin, Veronique J. L., Morris, Luke A., Cantin, Neal, Shepherd, Jihanne, Sarre, Luke, Peng, Julie, Liao, Yi, Pickrell, Joseph, Andolfatto, Peter, Matz, Mikhail, Bay, Line K., and Przeworski, Molly (2020) Population genetics of the coral Acropora millepora: toward genomic prediction of bleaching. Science, 369 (6501). eaba4674.

Da Fonseca, Rute R., Couto, Alvarina, Machado, Andre M., Brejova, Brona, Albertin, Carolin B., Silva, Filipe, Gardner, Paul, Baril, Tobias, Hayward, Alex, Campos, Alexandre, Ribeiro, Ângela M., Barrio-Hernandez, Inigo, Hoving, Henk-Jan, Tafur-Jimenez, Ricardo, Chu, Chong, Frazão, Barbara, Petersen, Bent, Peñaloza, Fernando, Musacchia, Francesco, Alexander, Graham C., Osório, Hugo, Winkelmann, Inger, Simakov, Oleg, Rasmussen, Simon, Rahman, M. Ziaur, Pisani, Davide, Vinther, Jakob, Jarvis, Erich, Zhang, Guojie, Strugnell, Jan M., Castro, L. Filipe C., Fedrigo, Olivier, Patricio, Mateus, Li, Qiye, Rocha, Sara, Antunes, Agostinho, Wu, Yufeng, Ma, Bin, Sanges, Remo, Vinar, Tomas, Blagoev, Blagoy, Sicheritz-Ponten, Thomas, Nielsen, Rasmus, and Gilbert, M Thomas P. (2020) A draft genome sequence of the elusive giant squid, Architeuthis dux. GigaScience, 9 (1). giz152.

Godri Pollitt, Krystal J., Peccia, Jordan, Ko, Albert I., Kaminski, Naftali, Dela Cruz, Charles S., Nebert, Daniel W., Reichardt, Juergen K.V., Thompson, David C., and Vasiliou, Vasilis (2020) COVID-19 vulnerability: the potential impact of genetic susceptibility and airborne transmission. Human Genomics, 14 (1). 17.

Field, Matt A., Rosen, Benjamin D., Dudchenko, Olga, Chan, Eva K. F., Minoche, Andre E., Edwards, Richard J., Barton, Kirston, Lyons, Ruth J., Tuipulotu, Daniel Enosi, Hayes, Vanessa M., Omer, Arina D., Colaric, Zane, Keilwagen, Jens, Skvortsova, Ksenia, Bogdanovic, Ozren, Smith, Martin A., Aiden, Erez Lieberman, Smith, Timothy P. L., Zammit, Robert A., and Ballard, J. William O. (2020) Canfam GSD: De novo chromosome-length genome assembly of the German Shepherd Dog (Canis lupus familiaris) using a combination of long reads, optical mapping, and Hi-C. GigaScience, 9 (4). pp. 1-12.

Rosa, Bruce A., Choi, Young-Jun, McNulty, Samantha N., Jung, Hyeim, Martin, John, Agatsuma, Takeshi, Sugiyama, Hiromu, Le, Thanh Hoa, Doanh, Pham Ngoc, Maleewong, Wanchai, Blair, David, Brindley, Paul J., Fischer, Peter, and Mitreva, Makedonka (2020) Comparative genomics and transcriptomics of 4 Paragonimus species provide insights into lung fluke parasitism and pathogenesis. GigaScience, 9 (7). giaa073.

Chen, Jen-Tsung, and Nargar, Katharina (2020) Editorial: Orchid genomics and developmental biology. Frontiers in Plant Science, 11. 1013.

Chen, Jen-Tsung, and Nargar, Katharina (2020) Editorial: orchid genomics and developmental biology. Frontiers in Plant Science, 11. 1013.

Yang, Chentao, Zheng, Yuxuan, Tan, Shangjin, Meng, Guanliang, Rao, Wei, Yang, Caiqing, Bourne, David G., O'Brien, Paul A., Xu, Junqiang, Liao, Sha, Chen, Ao, Chen, Xiaowei, Jia, Xinrui, Zhang, Ai-bing, and Liu, Shanlin (2020) Efficient COI barcoding using high throughput single-end 400 bp sequencing. BMC Genomics, 21. 862.

Huerlimann, R., Cooper, M.K., Edmunds, R.C., Villacorta-Rath, C., Le Port, A., Robson, H.L.A., Strugnell, J.M., Burrows, D., and Jerry, D.R. (2020) Enhancing tropical conservation and ecology research with aquatic environmental DNA methods: an introduction for non-environmental DNA specialists. Animal Conservation, 23 (6). pp. 632-645.

Rincon-Sandoval, Melissa, Duarte-Ribeiro, Emanuell, Davis, Aaron M., Santaquiteria, Aintzane, Hughes, Lily C., Baldwin, Carole C., Soto-Torres, Luisangely, Acero P, Arturo, Walker, H.J., Carpenter, Kent E., Sheaves, Marcus, Orti, Guillermo, Arcila, Dahiana, and Betancur-R, Ricardo (2020) Evolutionary determinism and convergence associated with water-column transitions in marine fishes. Proceedings of the National Academy of Sciences of the United States of America, 117 (52). pp. 33396-33403.

Fadaeifard, F., Rabiei, M., and Sharifpour, M.F. (2020) Genetic characterization of Lactococcus garvieae isolated from farmed rainbow trout by random amplified polymorphic DNA-PCR in Iran. Journal of the Hellenic Veterinary Medical Society, 71 (1). pp. 2023-2030.

Cooke, Ira, Ying, Hua, Forêt, Sylvain, Bongaerts, Pim, Strugnell, Jan M., Simakov, Oleg, Zhang, Jia, Field, Matt A., Rodriguez-Lanetty, Mauricio, Bell, Sara C., Bourne, David G., van Oppen, Madeleine J.H., Ragan, Mark A., and Miller, David J. (2020) Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts. Science Advances, 6 (48). eabc6318.

Wright, Helen, Birks, Melanie, Zhao, Lin, and Mills, Jane (2020) Genomics in oncology nursing practice in Australia. Collegian, 27 (4). pp. 410-415.

Athukorala, Ajani, Forwood, Jade K., Phalen, David N., and Sarker, Subir (2020) Molecular Characterisation of a Novel and Highly Divergent Passerine Adenovirus 1. Viruses, 12 (9). 1036.

Sarker, Subir, Batinovic, Steven, Talukder, Saranika, Das, Shubhagata, Park, Fiona, Petrovski, Steve, Forwood, Jade K., Helbig, Karla J., and Raidal, Shane R. (2020) Molecular characterisation of a novel pathogenic avipoxvirus from the Australian magpie (Gymnorhina tibicen). Virology, 540. pp. 1-16.

ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, The (2020) Pan-cancer analysis of whole genomes. Nature, 578. pp. 82-93.

Sarker, Subir, Athukorala, Ajani, Talukder, Saranika, and Phalen, David N. (2020) Phylogenetic analyses to uncover the evolutionary relationship of a newly sequenced mitochondrial genome from an Eastern spinebill (Acanthorhynchus tenuirostris). Mitochondrial DNA Part B: Resources, 5 (3). pp. 3252-3256.

Chang, Wendy, Renaut, Patricia, and Pretorius, Casper (2020) SMAD4 juvenile polyposis syndrome and hereditary haemorrhagic telangiectasia presenting in a middle-aged man as a large fungating gastric mass, polyposis in both upper and lower GI tract and iron deficiency anaemia, with no known family history. BMJ Case Reports, 13 (12). e236855.

Zenger, Kyall R., Khatkar, Mehar S., Jones, David B., Khalilisamani, Nima, Jerry, Dean R., and Raadsma, Herman W. (2019) Genomic selection in aquaculture: application, limitations and opportunities with special reference to marine shrimp and pearl oysters. Frontiers in Genetics, 9. 693.

Silva, Catarina N.S., Villacorta-Rath, Cecilia, Woodings, Laura N., Murphy, Nicholas P., Green, Bridget S., Hartmann, Klaas, Gardner, Caleb, Bell, James J., and Strugnell, Jan M. (2019) Advancing our understanding of the connectivity, evolution and management of marine lobsters through genetics. Reviews in Fish Biology and Fisheries, 29 (3). pp. 669-687.

Gan, Han Ming, Tan, Mun Hua, Austin, Christopher M., Sherman, Craig D.H., Wong, Yen Ting, Strugnell, Jan, Gervis, Mark, McPherson, Luke, and Miller, Adam D. (2019) Best foot forward: nanopore long reads, hybrid meta-assembly, and haplotig purging optimizes the first genome assembly for the southern hemisphere blacklip abalone (Haliotis rubra). Frontiers in Genetics, 10. 889.

Sarker, Subir, Talukder, Saranika, Sutherland, Michelle, Forwood, Jade K., Helbig, Karla, and Raidal, Shane R. (2019) Characterization of the first mitochondrial genome of a little Corella (Cacatua sanguinea) and its phylogenetic implications. Mitochondrial DNA Part B: Resources, 4 (2). pp. 3792-3794.

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.

Sarker, Subir, Isberg, Sally R., Moran, Jasmin L., De Araujo, Rachel, Elliott, Nikki, Melville, Lorna, Beddoe, Travis, and Helbig, Karla J. (2019) Crocodilepox Virus Evolutionary Genomics Supports Observed Poxvirus Infection Dynamics on Saltwater Crocodile (Crocodylus porosus). Viruses, 11 (12). 1116.

Devloo-Delva, Floriaan, Huerlimann, Roger, Chua, Gladys, Matley, Jordan K., Heupel, Michelle R., Simpfendorfer, Colin A., and Maes, Gregory E. (2019) How does marker choice affect your diet analysis: comparing genetic markers and digestion levels for diet metabarcoding of tropical-reef piscivores. Marine and Freshwater Research, 70 (1). MF17209. pp. 8-18.

Nowland, Samantha J., Silva, Catarina N.S., Southgate, Paul C., and Strugnell, Jan M. (2019) Mitochondrial and nuclear genetic analyses of the tropical black-lip rock oyster (Saccostrea echinata) reveals population subdivision and informs sustainable aquaculture development. BMC Genomics, 20. 711.

Sutherland, Michelle, Sarker, Subir, and Raidal, Shane R. (2019) Molecular and microscopic characterisation of a novel pathogenic herpesvirus from Indian ringneck parrots (Psittacula krameri). Veterinary Microbiology, 239. 108428.

Cooke, Ira, Mead, Oliver, Whalen, Casey, Boote, Chloe, Moya, Aurelie, Ying, Hua, Robbins, Steven, Strugnell, Jan M., Darling, Aaron, Miller, David, Voolstra, Christian, and Adamska, Maya (2019) Molecular techniques and their limitations shape our view of the holobiont. Zoology, 137. 125695.

Roura, Alvaro, Amor, Michael, Gonzalez, Angel F., Guerra, Angel, Barton, Eric D., and Strugnell, Jan M. (2019) Oceanographic processes shape genetic signatures of planktonic cephalopod paralarvae in two upwelling regions. Progress in Oceanography, 170. pp. 11-27.

Rowland, Joshua, Akbarov, Artur, Eales, James, Xu, Xiaoguang, Dormer, John P., Guo, Hui, Denniff, Matthew, Jiang, Xiao, Ranjzad, Parisa, Nazgiewicz, Alicja, Ribeiro Prestes, Prescilla, Antczak, Andrzej, Szulinska, Monika, Wise, Ingrid A., Zukowska-Szczechowska, Ewa, Bogdanski, Pawel, Woolf, Adrian S., Samani, Nilesh J., Charchar, Fadi J., and Tomaszewski, Maciej (2019) Uncovering genetic mechanisms of kidney aging through transcriptomics, genomics, and epigenomics. Kidney International, 95 (3). pp. 624-635.

Monteuuis, Geoffray, Wong, Justin J.L., Bailey, Charles G., Schmitz, Ulf, and Rasko, John E.J. (2019) The changing paradigm of intron retention: regulation, ramifications and recipes. Nucleic Acids Research, 47 (22). pp. 11497-11513.

Waardenberg, Ashley J., and Field, Matthew A. (2019) consensusDE: an R package for assessing consensus of multiple RNA-seq algorithms with RUV correction. PeerJ, 7. e8206. pp. 1-16.

Sarker, Subir, Das, Shubhagata, Forwood, Jade K., and Raidal, Shane R. (2019) The first complete mitogenome of Australia’s largest raptor, the wedge-tailed eagle (Aquila audax). Mitochondrial DNA Part B: Resources, 4 (1). pp. 434-436.

Sarker, Subir, Sutherland, Michelle, Talukder, Saranika, Das, Shubhagata, Forwood, Jade K., Helbig, Karla, and Raidal, Shane R. (2019) The first complete mitogenome of Indian ringneck (Psittacula krameri) demonstrates close phylogenetic relationship with Eclectus parrot. Mitochondrial DNA Part B: Resources, 4 (2). pp. 3579-3581.

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.

Robbins, Steven J., Singleton, Caitlin M., Chan, Cheong Xin, Messer, Lauren F., Geers, Aileen U., Ying, Hua, Baker, Alexander, Bell, Sara C., Morrow, Kathleen M., Ragan, Mark A., Miller, David J., Forêt, Sylvain, Voolstra, Christian R., Tyson, Gene W., Bourne, David G., Ball, Eldon, Beeden, Roger, Berumen, Michael, Aranda, Manuel, Ravasi, Timothy, Bongaerts, Pim, Hoegh-Guldberg, Ove, Cooke, Ira, Leggat, Bill, Sprungala, Susanne, Fitzgerald, Anna, Shang, Catherine, Lundgren, Petra, Fyffe, Theresa, Rubino, Francesco, van Oppen, Madeleine, Weynberg, Karen, and Bells, Sara C. (2019) A genomic view of the reef-building coral Porites lutea and its microbial symbionts. Nature Microbiology, 4 (12). pp. 2090-2100.

McKnight, Donald T., Huerlimann, Roger, Bower, Deborah S., Schwarzkopf, Lin, Alford, Ross A., and Zenger, Kyall R. (2019) microDecon: a highly accurate read‐subtraction tool for the post‐sequencing removal of contamination in metabarcoding studies. Environmental DNA, 1 (1). pp. 14-25.

Calcino, Andrew D., de Oliveira, André Luiz, Simakov, Oleg, Schwaha, Thomas, Zieger, Elisabeth, Wollesen, Tim, and Wanninger, Andreas (2019) The quagga mussel genome and the evolution of freshwater tolerance. DNA Research, 26 (5). pp. 411-422.

Zarrella, Ilaria, Herten, Koen, Maes, Gregory E., Tai, Shuaishuai, Yang, Ming, Seuntjens, Eve, Ritschard, Elena A., Zach, Michael, Styfhals, Ruth, Sanges, Remo, Simakov, Oleg, Ponte, Giovanna, and Fiorito, Graziano (2019) The survey and reference assisted assembly of the Octopus vulgaris genome. Scientific Data, 6. 13.

Guernier, Vanina, Allan, Kathryn J., and Goarant, Cyrille (2018) Advances and challenges in barcoding pathogenic and environmental Leptospira. Parasitology, 145 (5). pp. 595-607.

Sarker, S., Das, S., Helbig, K., Peters, A., and Raidal, S.R. (2018) Genome sequence of an Australian strain of canid alphaherpesvirus 1. Australian Veterinary Journal, 96 (1-2). pp. 24-27.

Sarker, Subir, Isberg, Sally R., Milic, Natalie L., Lock, Peter, and Helbig, Karla J. (2018) Molecular characterization of the first saltwater crocodilepox virus genome sequences from the world's largest living member of the Crocodylia. Scientific Reports, 8 (1). 5623.

Xu, Xiaguang, Eales, James M., Akbarov, Artur, Guuo, Hui, Becker, Lorenz, Talavera, David, Ashraf, Fehzan, Nawaz, Jabran, Pramanik, Sanjeev, Bowes, John, Jiang, Xiao, Dormer, John, Denniff, Matthew, Antczak, Andrzej, Szulinska, Monika, Wise, Ingrid, Prestes, Priscilla R., Glyda, Maciej, Bogdanski, Pawel, Zukowska-Szczechowska, Ewa, Berzuini, Carlo, Woolf, Adrian S., Samani, Nilesh J., Charchar, Fadi J., and Tomaszewski, Maciej (2018) Molecular insights into genome-wide association studies of chronic kidney disease-defining traits. Nature Communications, 9. 4800.

do Prado, Fernanda Dotti, Vera, Manuel, Hermida, Miguel, Bouza, Carmen, Pardo, Belén G., Vilas, Román, Blanco, Andrés, Fernández, Carlos, Maroso, Francesco, Maes, Gregory E., Turan, Cemal, Volckaert, Filip A.M., Taggart, John B., Carr, Adrian, Ogden, Rob, Nielsen, Einar Eg, Aquatrace, Consortium, and Martínez, Paulino (2018) Parallel evolution and adaptation to environmental factors in a marine flatfish: implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus). Evolutionary Applications, 11 (8). pp. 1322-1341.

Maroso, F., Hillen, J.E.J., Pardo, B.G., Gkagkavouzis, K., Coscia, I., Hermida, M., Franch, R., Hellemans, B., Van Houdt, J., Simionati, B., Taggart, J.B., Nielsen, E.E., Maes, G.E., Ciavaglia, S.A., Webster, L.M., Volckaert, F.A.M., Martínez, P., Bargelloni, Luca, Ogden, R., and AquaTrace Consortium, (2018) Performance and precision of double digestion RAD (ddRAD) genotyping in large multiplexed datasets of marine fish species. Marine Genomics, 39. pp. 64-72.

Bragg, Jason G., Potter, Sally, Afonso Silva, Ana C., Hoskin, Conrad J., Bai, Benjamin Y.H., and Moritz, Craig (2018) Phylogenomics of a rapid radiation: the Australian rainbow skinks. BMC Evolutionary Biology, 18. 15.

Pazmiño, Diana A., Maes, Gregory E., Green, Madeline E., Simpfendorfer, Colin A., Hoyos-Padilla, E. Mauricio, Duffy, Clinton J.A., Meyer, Carl G., Kerwath, Sven E., Salinas-de-Leon, Pelayo, and van Herwerden, Lynne (2018) Strong trans-Pacific break and local conservation units in the Galapagos shark (Carcharhinus galapagensis) revealed by genome-wide cytonuclear markers. Heredity, 120. pp. 407-421.

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.

Terraneo, Tullia I., Arrigoni, Roberto, Benzoni, Francesca, Forsman, Zac H., and Berumen, Michael L. (2018) Using ezRAD to reconstruct the complete mitochondrial genome of Porites fontanesii (Cnidaria: Scleractinia). Mitochondrial DNA Part B: Resources, 3 (1). pp. 173-174.

Naude, Tanian, Pant, Sameer, Tavassoli, Mousa, Sarker, Subir, and Ghorashi, Seyed Ali (2018) The complete mitochondrial genome of Linguatula serrata (tongue worm) isolated from a dog and phylogenetic analysis. Mitochondrial DNA Part B: Resources, 3 (1). pp. 357-358.

Das, Shubhagata, Rakib, Tofazzal Md, Islam, Md Shafiqul, Rahaman, Md Mustafizur, Das, Tridip, Hossain, Mohammad Alamgir, Sarker, Subir, and Raidal, Shane R. (2018) The first complete mitogenome of Indian star tortoise (Geochelone elegans). Mitochondrial DNA Part B: Resources, 3 (2). pp. 1112-1113.

Sarker, Subir, Das, Shubhagata, Ghorashi, Seyed A., Forwood, Jade K., Helbig, Karla, and Raidal, Shane R. (2018) The first complete mitogenome of red-bellied parrot (Poicephalus rufiventris) resolves phylogenetic status within Psittacidae. Mitochondrial DNA Part B: Resources, 3 (1). pp. 195-197.

Raeymaekers, Joost A.M., Chaturvedi, Anurag, Hablützel, Pascal I., Verdonck, Io, Hellemans, Bart, Maes, Gregory, De Meester, Luc, and Volckaert, Filip A.M. (2017) Adaptive and non-adaptive divergence in a common landscape. Nature Communications, 8. 267.

Sarker, Subir, Das, Shubhagata, Frith, Sarah, Forwood, Jade K., Helbig, Karla, and Raidal, Shane R. (2017) Complete mitochondrial genome sequence of an Australian little penguin (Eudyptula minor novaehollandia, J.R. Forster, 1781). Mitochondrial DNA Part B: Resources, 2 (2). pp. 428-429.

Paparini, Andrea, Yang, Rongchang, Chen, Linda, Tong, Kaising, Gibson-Kueh, Susan, Lymbery, Alan, and Ryan, Una M. (2017) Cryptosporidium in fish: alternative sequencing approaches and analyses at multiple loci to resolve mixed infections. Parasitology, 144 (13). pp. 1811-1820.

Hillen, J.E.J., Coscia, I., Vandeputte, M., Herten, K., Hellemans, B., Maroso, F., Vergnet, A., Allal, F., Maes, Gregory, and Volckaert, F.A.M. (2017) Estimates of genetic variability and inbreeding in experimentally selected populations of European sea bass. Aquaculture, 479. pp. 742-749.

Firth, Cadhla, Blasdell, Kim R., Amos-Ritchie, Rachel, Sendow, Indrawati, Agnihotri, Kalpana, Boyle, David B., Daniels, Peter, Kirkland, Peter, and Walker, Peter J. (2017) Genomic analysis of bluetongue virus episystems in Australia and Indonesia. Veterinary Research, 48. 82.

Sarker, Subir, Das, Shubhagata, Lavers, Jennifer L., Hutton, Ian, Helbig, Karla, Imbery, Jacob, Upton, Chris, and Raidal, Shane R. (2017) Genomic characterization of two novel pathogenic avipoxviruses isolated from pacific shearwaters (Ardenna spp.). BMC Genomics, 18 (1). 298.

Silva, C.N.S., McFarlane, S.E., Hagen, I.J., Rönnegård, L., Billing, A.M., Kvalnes, T., Kemppainen, P., Rønning, B., Ringsby, T.H., Sæther, B-E., Qvarnström, A., Ellegren, H., Jensen, H., and Husby, A. (2017) Insights into the genetic architecture of morphological traits in two passerine bird species. Heredity, 119. pp. 197-205.

Sarker, Subir, Roberts, Hayley K., Tidd, Naomie, Ault, Shayne, Ladmore, Georgia, Peters, Andrew, Forwood, Jade K., Helbig, Karla, and Raidal, Shane R. (2017) Molecular and microscopic characterization of a novel Eastern grey kangaroopox virus genome directly from a clinical sample. Scientific Reports, 7. 16472.

Gruenstaeudl, Michael, Nauheimer, Lars, and Borsch, Thomas (2017) Plastid genome structure and phylogenomics of Nymphaeales: conserved gene order and new insights into relationships. Plant Systematics and Evolution, 303 (9). pp. 1251-1270.

Direk, Nese, Williams, Stephanie, Smith, Jennifer A., Ripke, Stephan, Air, Tracy, Amare, Azmeraw T., Amin, Najaf, Baune, Bernhard T., Bennett, David A., Blackwood, Douglas H.R., Boomsma, Dorret, Breen, Gerome, Buttenschøn, Henriette N., Byrne, Enda M., Børglum, Anders D., Castelao, Enrique, Cichon, Sven, Clarke, Toni-Kim, Cornelis, Marilyn C., Dannlowski, Udo, De Jager, Philip L., Demirkan, Ayse, Domenici, Enrico, van Duijn, Cornelia M., Dunn, Erin C., Eriksson, Johan G., Esko, Tonu, Faul, Jessica D., Ferrucci, Luigi, Fornage, Myriam, de Geus, Eco, Gill, Michael, Gordon, Scott D., Grabe, Hans Jörgen, van Grootheest, Gerard, Hamilton, Steven P., Hartman, Catharina A., Heath, Andrew C., Hek, Karin, Hofman, Albert, Homuth, Georg, Horn, Carsten, Hottenga, Jouke Jan, Kardia, Sharon L.R., Kloiber, Stefan, Koenen, Karestan, Kutalik, Zoltán, Ladwig, Karl-Heinz, Lahti, Jari, Levinson, Douglas F., Lewis, Cathryn M., Lewis, Glyn, Li, Qingqin S., Llewellyn, David J., Lucae, Susanne, Lunetta, Kathryn L., MacIntyre, Donald J., Madden, Pamela, Martin, Nicholas G., McIntosh, Andrew M., Metspalu, Andres, Milaneschi, Yuri, Montgomery, Grant W., Mors, Oles, Mosley, Thomas H., Murabito, Joanne M., Müller-Myhsok, Bertram, Nöthen, Markus M., Nyholt, Dale R., O'Donovan, Michael C., Penninx, Brenda W., Pergadia, Michele L., Perlis, Roy, Potash, James B., Preisig, Martin, Purcell, Shaun M., Quiroz, Jorge A., Räikkönen, Katri, Rice, John P., Rietschel, Marcella, Rivera, Margarita, Schulze, Thomas G., Shi, Jianxin, Shyn, Stanley, Sinnamon, Grant C., Smit, Johannes H., Smoller, Jordan W., Snieder, Harold, Tanaka, Toshiko, Tansey, Katherine E., Teumer, Alexander, Uher, Rudolf, Umbricht, Daniel, Van der Auwera, Sandra, Ware, Erin, Weir, David R., Weissman, Myrna M., Willemsen, Gonneke, Yang, Jingyun, Zhao, Wei, Tiemeier, Henning, and Sullivan, Patrick F. (2017) An analysis of two genome-wide association meta-analyses identifies a new locus for broad depression phenotype. Biological Psychiatry, 82 (5). pp. 322-329.

Sarker, Subir, Helbig, Karla, and Raidal, Shane R. (2017) The first complete mitochondrial genome sequence of an Australian raven (Corvus coronoides). Mitochondrial DNA Part B: Resources, 2 (2). pp. 473-474.

Takahashi, Hideaki, Hayashi, Masayuki, Ushizawa, Koichi, Nishino, Kagetomo, Haga, Yasutoshi, Saito, Takao, Fujimori, Yuki, Iwama, Nagako, Takeda, Hisato, Komatsu, Masanori, and Malau-Aduli, Aduli E.O. (2016) Association of bovine fatty acid desaturase 2 gene single-nucleotide polymorphisms with intramuscular fatty acid composition in Japanese black steers. Open Journal of Animal Sciences, 6 (2). pp. 105-115.

Vij, Shubha, Kuhl, Heiner, Kuznetsova, Inna S., Komissarov, Aleksey, Yurchenko, Andrey A., Van Heusden, Peter, Singh, Siddharth, Thevasagayam, Natascha M., Prakki, Sai Rama Sridatta, Purushothaman, Kathiresan, Saju, Jolly M., Jiang, Junhui, Mbandi, Stanley Kimbung, Jonas, Mario, Hin Yan Tong, Amy, Mwangi, Sarah, Lau, Doreen, Ngoh, Si Yan, Liew, Woei Chang, Shen, Xueyan, Hon, Lawrence S., Drake, James P., Boitano, Matthew, Hall, Richard, Chin, Chen-Shan, Lachumanan, Ramkumar, Korlach, Jonas, Trifonov, Vladimir, Kabilov, Marsel, Tupikin, Alexey, Green, Darrell, Moxon, Simon, Garvin, Tyler, Sedlazeck, Fritz J., Vurture, Gregory W., Gopalapillai, Gopikrishna, Kumar Katneni, Vinaya, Noble, Tansyn H., Scaria, Vinod, Sivasubbu, Sridhar, Jerry, Dean R., O'Brien, Stephen J., Schatz, Michael C., Dalmay, Tamás, Turner, Stephen W., Lok, Si, Christoffels, Alan, and Orbán, László (2016) Chromosomal-level assembly of the Asian seabass genome using long sequence reads and multi-layered scaffolding. PLoS Genetics, 12 (4). pp. 1-35.

Taillebois, Laura, Dudgeon, Christine, Maher, Safia, Crook, David A., Saunders, Thor M., Barton, Diane P., Taylor, Jonathan A., Welch, David J., Newman, Stephen J., Travers, Michael J., Saunders, Richard J., and Ovenden, Jennifer (2016) Characterization, development and multiplexing of microsatellite markers in three commercially exploited reef fish and their application for stock identification. PeerJ, 4. e2418. pp. 1-18.

Capel, K.C.C., Migotto, A.E., Zilberberg, C., Lin, M.F., Forsman, Z., Miller, D.J., and Kitahara, M.V. (2016) Complete mitochondrial genome sequences of Atlantic representatives of the invasive Pacific coral species Tubastraea coccinea and T. tagusensis (Scleractinia, Dendrophylliidae): implications for species identification. Gene, 590 (2). pp. 270-277.

Li, You, Yagi, Hisato, Onuoha, Ezenwa Obi, Damerla, Rama Rao, Francis, Richard, Furutani, Yoshiyuki, Tariq, Muhammad, King, Stephen M., Hendricks, Gregory, Cui, Cheng, Saydmohammed, Manush, Lee, Dong Min, Zahid, Maliha, Sami, Iman, Leatherbury, Linda, Pazour, Gregory J., Ware, Stephanie M., Nakanishi, Toshio, Goldmuntz, Elizabeth, Tsang, Michael, and Lo, Cecilia W. (2016) DNAH6 and its interactions with PCD genes in heterotaxy and primary ciliary dyskinesia. PLoS Genetics, 12 (2). e1005821.

Wise, Ingrid, and Charchar, Fadi (2016) Epigenetic modifications in essential hypertension. International Journal of Molecular Sciences, 17 (4). 451.

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.

Huang, Bixing, Firth, Cadhla, Watterson, Daniel, Allcock, Richard, Colmant, Agathe M.G., Hobson-Peters, Jody, Kirkland, Peter, Hewitson, Glen, Mcmahon, Jamie, Hall-Mendelin, Sonja, van den Hurk, Andrew F., and Warrilow, David (2016) Genetic characterization of archived bunyaviruses and their potential for emergence in Australia. Emerging Infectious Diseases, 22 (5). pp. 833-840.

Kjeldsen, Shannon R., Zenger, Kyall R., Leigh, Kellie, Ellis, William, Tobey, Jenifer, Phalen, David, Melzer, Alistair, FitzGibbon, Sean, and Raadsma, Herman W. (2016) Genome-wide SNP loci reveal novel insights into koala (Phascolarctos cinereus) population variability across its range. Conservation Genetics, 17 (2). pp. 337-353.

Das, Shubhagata, Subir, Sarker, Forwood, Jade K., Ghorashi, Seyed A., and Raidal, Shane R. (2016) Whole-Genome Sequence of a Beak and Feather Disease Virus Isolate from a Fledgling Red-Capped Parrot (Purpureicephalus spurius). Genome Announcements, 4 (5). e01108-16.

Li, Jia, Bian, Chao, Hu, Yinchang, Mu, Xidong, Shen, Xueyan, Ravi, Vydianathan, Kuznetsova, Inna S., Sun, Ying, Xinxin, You, Qui, Ying, Zhang, Xinhui, Yu, Hui, Huang, Yu, Xu, Pao, Gu, Ruobo, Xu, Junmin, Orban, Laszlo, Venkatesh, Byrappa, and Shi, Qiong (2016) A chromosomelevel genome assembly of the Asian arowana, Scleropages formosus. Scientific Data, 3. 160105.

Sarker, Subir, Das, Shubhagata, Forwood, Jade, Helbig, Karla, and Raidal, Shane R. (2016) The complete mitochondrial genome sequence of an Endangered powerful owl (Ninox strenua). Mitochondrial DNA Part B: Resources, 1 (1). pp. 722-723.

Lu, Xia, Wang, Hongxia, Li, Yan, and Liu, Baozhong (2016) The impact of selection on population genetic structure in the clam Meretrix petechialis revealed by microsatellite markers. Genetica, 144 (1). pp. 1-8.

Book Chapter

Pujolar, José Martin, and Maes, Gregory E. (2016) Evolutionary genomics of North Atlantic eels: current status and perspectives. In: Arai, Takaomi, (ed.) Biology and Ecology of Anguillid Eels. CRC Press, Boca Raton, FL, USA, pp. 36-51.

Conference Item

Shiel, Brett P., Cooke, Ira R., Hall, Nathan E., Robinson, Nicholas A., and Strugnell, Jan M. (2018) Summer mortality in molluscs: the genetic basis for resilience and susceptibility. In: Breeding Focus 2018. pp. 59-79. From: Breeding Focus 2018: reducing heat stress, 19-20 September 2018, Armidale, NSW, Australia.

Thesis

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

Whitelaw, Brooke (2021) The iridescent enigma: genome evolution and species boundaries of the blue-ringed octopus species complex (Octopodidae: Hapalochlaena). PhD thesis, James Cook University.

Kjeldsen, Shannon Rikke (2020) Addressing koala conservation management needs: applying novel genomic methods and assessing ecological exchangeability and genetic diversity across the species range. PhD thesis, James Cook University.

Seid, Mengistu Endris (2020) Rational vaccine development for malaria from genomic sequence information. 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.