A

Abed, Jassim M., Ali, Atheer H., Yaseen, Ali T., Al-Faisal, Abbas, Mutlak, Falah, Jassim, Furat K., Jerry, Dean R., and Jawad, Laith A. (2023) Barramundi (Lates calcarifer) from Iraq: a new record for the Arabian Gulf, with a highlight on it genetic origins and description of two skeletal deformities. New Zealand Journal of Zoology. (In Press)

B

Budd, Alyssa M., Robins, Julie B., Whybird, Olivia, and Jerry, Dean R. (2022) Epigenetics underpins phenotypic plasticity of protandrous sex change in fish. Ecology and Evolution, 12 (3). e8730.

Bolte, Brett, Goldsbury, Julie, Huerlimann, Roger, Jerry, Dean, and Kingsford, Mike (2021) Validation of eDNA as a viable method of detection for dangerous cubozoan jellyfish. Environmental DNA, 3 (4). pp. 769-779.

Barnes, Alissa, Sutaria, Dipani, Harry, Alastair V., and Jabado, Rima W. (2018) Demographics and length and weight relationships of commercially important sharks along the north-western coast of India. Aquatic Conservation: marine and freshwater ecosystems, 28 (6). pp. 1374-1383.

Booth, Mark, and Pirozzi, Igor (2018) Making sense of nonsense: using regression analysis to deal with highly variable data collected from a yellowtail kingfish (Seriola lalandi) digestibility experiment. Aquaculture, 485. pp. 39-48.

Bylemans, Jonas, Maes, Gregory E., Diopere, Eveline, Cariani, Alessia, Senn, Helen, Taylor, Martin I., Helyar, Sarah, Bargelloni, Luca, Bonaldo, Alessio, Carvalho, Gary, Guarniero, Ilaria, Komen, Hans, Martinsohn, Jann Th., Nielsen, Einar E., Tinti, Fausto, Volckaert, Filip A.M., and Ogden, Rob (2016) Evaluating genetic traceability methods for captive‑bred marine fish and their applications in fisheries management and wildlife forensics. Aquaculture Environment Interactions , 8. pp. 131-145.

Belpaire, Claude, Pujolar, José Martin, Geeraerts, Caroline, and Maes, Gregory E. (2016) Contaminants in eels and their role in the collapse of the eel stocks. In: Arai, Takaomi, (ed.) Biology and Ecology of Anguillid Eels. CRC Press, Boca Raton, FL, USA, pp. 225-250.

C

Chen, Jun Yu, Zeng, Chaoshu, and Cobcroft, Jennifer M. (2023) Year-Round Spawning, Filial Cannibalism, and Embryonic and Larval Development of the Coral Reef Fish Orchid Dottyback, Pseudochromis fridmani. Fishes, 8 (9). 451.

Condon, Kelly (2019) Management of Betanodavirus infection in Queensland giant grouper, Epinephelus lanceolatus (Bloch). PhD thesis, James Cook University.

D

Downie, Adam Tyler (2021) How do coral reef fishes develop into athletes? PhD thesis, James Cook University.

Dibattista, Joseph D., Wakefield, Corey B., Moore, Glenn I., Bunce, Michael, Williams, Ashley J., O'Malley, Joseph M., Humphreys, Robert L., Halafihi, Tuikolongahau, Williams, Alan, Green, Mark A., Graham, Ken, Tucker, Sarah J., Cruz, Eric, and Newman, Stephen J. (2018) Genomic and life-history discontinuity reveals a precinctive lineage for a deep-water grouper with gene flow from tropical to temperate waters on the west coast of Australia. Ecological Genetics and Genomics, 9. pp. 23-33.

Domingos, Jose A., Budd, Alyssa M., Banh, Quyen Q., Goldsbury, Julie A., Zenger, Kyall R., and Jerry, Dean R. (2018) Sex-specific dmrt1 and cyp19a1 methylation and alternative splicing in gonads of the protandrous hermaphrodite barramundi. PLoS ONE, 13 (9). e0204182.

Delghandi, M., Goddard, S., Jerry, D.R., Dao, H.T., Al Hinai, M.S.N., Al-Amry, W., and Al-Marzouqi, A. (2016) Novel genomic microsatellite markers for genetic population and diversity studies of tropical scalloped spiny lobster (Panulirus homarus) and their potential application in related Panulirus species. Genetics and Molecular Research, 15 (2). pp. 1-5.

F

Foote, Andrew, Simma, David, Khatkar, Mehar, Raadsma, Herman, Guppy, Jarrod, Coman, Gregory, Giardina, Erika, Jerry, Dean, Zenger, Kyall, and Wade, Nicholas (2019) Considerations for maintaining family diversity in commercially mass-spawned penaeid shrimp: a case study on Penaeus monodon. Frontiers in Genetics, 10. 1127.

G

Guppy, Jarrod L., Marc, Adrien F., and Jerry, Dean R. (2022) Maturation and spawning performance of hormonally-induced precocious female barramundi (Lates calcarifer) and implications of their use in selective breeding. Aquaculture, 552. 737991.

H

Hillcoat, Kyle Baron (2022) Latitudinal variations in the age-based demography of two large predatory reef fishes (Lutjanus malabaricus and Lutjanus sebae) in Queensland, Australia. PhD thesis, James Cook University.

Harry, Alastair V., Butcher, Paul A., Macbeth, William G., Morgan, Jess A.T., Taylor, Stephen M., and Geraghty, Pascal T. (2019) Life history of the common blacktip shark, Carcharhinus limbatus, from central eastern Australia and comparative demography of a cryptic shark complex. Marine and Freshwater Research, 70 (6). pp. 834-848.

He, Song, Harrison, Hugo B., and Berumen, Michael L. (2018) Species delineation and hybrid identification using diagnostic nuclear markers for Plectropomus leopardus and Plectropomus maculatus. Fisheries Research, 206. pp. 287-291.

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.

L

Li, Joan Y.Q., Nankervis, Leo, and Dawson, Amanda L. (2022) Digesting the Indigestible: Microplastic Extraction from Prawn Digestive Tracts. Frontiers in Environmental Chemistry, 3. 903314.

Loughnan, Shannon R., Smith-Keune, Carolyn, Beheregaray, Luciano B., Robinson, Nicholas A., and Jerry, Dean R. (2019) Population genetic structure of barramundi (Lates calcarifer) across the natural distribution range in Australia informs fishery management and aquaculture practices. Marine and Freshwater Research, 70. pp. 1533-1542.

Lal, Monal M., Southgate, Paul C., Jerry, Dean R., Bosserelle, Cyprien, and Zenger, Kyall R. (2017) Swept away: ocean currents and seascape features influence genetic structure across the 18,000 Km Indo-Pacific distribution of a marine invertebrate, the black-lip pearl oyster Pinctada margaritifera. BMC Genomics, 18. 66. pp. 1-21.

Lal, Monal M., Southgate, Paul C., Jerry, Dean R., and Zenger, Kyall R. (2016) Fishing for divergence in a sea of connectivity: the utility of ddRADseq genotyping in a marine invertebrate, the black-lip pearl oyster Pinctada margaritifera. Marine Genomics, 25. pp. 57-68.

Lal, Monal M., Southgate, Paul C., Jerry, Dean R., Bosserelle, Cyprien, and Zenger, Kyall R. (2016) A parallel population genomic and hydrodynamic approach to fishery management of highly-dispersive marine invertebrates: the case of the Fijian Black-Lip Pearl Oyster Pinctada margaritifera. PLoS One, 11 (8). e0161390. pp. 1-26.

M

Marc, Adrien, Guppy, Jarrod L., Marshall, Hayley, Jerry, Dean R., Rudd, Donna, and Paris, Damien B.B.P. (2023) Optimization of a non-activating medium for short-term chilled storage of barramundi (Lates calcarifer) testicular spermatozoa. Fish Physiology and Biochemistry, 49. pp. 559-576.

N

Nayfa, Maria G., Jones, Dave B., Benzie, John A.H., Jerry, Dean R., and Zenger, Kyall R. (2020) Comparing genomic signatures of selection between the Abbassa Strain and eight wild populations of Nile tilapia (Oreochromis niloticus) in Egypt. Frontiers in Genetics, 11. 567969.

Nayfa, Maria George (2020) Domestication in aquaculture fishes - elucidating the genetic consequences in Nile Tilapia (Oreochromis niloticus). PhD thesis, James Cook University.

Noble, Tansyn N., Coman, Gregory J., Wade, Nicholas M., Thomson, Peter C., Raadsma, Herman W., Khatkar, Mehar S., Guppy, Jarrod L., and Jerry, Dean R. (2020) Genetic parameters for tolerance to gill-associated virus under challenge-test conditions in the black tiger shrimp (Penaeus monodon). Aquaculture, 516. 734428.

Noble, Tansyn H., Coman, Gregory J., Wade, Nicholas M., Thomson, Peter, Raadsma, Herman W., Khatkar, Mehar S., Guppy, Jarrod L., and Jerry, Dean R. (2020) Genetic parameters of Gill-associated virus infection and body weight under commercial conditions in black tiger shrimp, Penaeus monodon. Aquaculture, 528. 735580.

Nuez-Ortin, Waldo G., Carter, Chris G., Wilson, Richard, Cooke, Ira R., Amoroso, Gianluca, Cobcroft, Jennifer M., and Nichols, Peter D. (2017) Triploid Atlantic salmon shows similar performance, fatty acid composition and proteome response to diploids during early freshwater rearing. Comparative Biochemistry and Physiology Part D: Genomics and Proteomics, 22. pp. 67-77.

Nayfa, Maria G., and Zenger, Kyall R. (2016) Unravelling the effects of gene flow and selection in highly connected populations of the silver-lip pearl oyster (Pinctada maxima). Marine Genomics, 28. pp. 99-106.

P

Puncher, Gregory N., Cariani, Alessia, Maes, Gregory E., Van Houdt, Jeroen, HertenKatho, Koen, Cannas, Rita, Rodriguez-Ezpeleta, Naiara, Albaina, Aitor, Estonba, Andone, Lutcavage, Molly, Hanke, Alex, Rooker, Jay, Franks, James S., Quattro, Joseph S., Basilone, Gualtiero, Fraile, Igaratza, Laconcha, Urtzi, Goni, Nicolas, Kimoto, Ai, Macias, David, Alemany, Francisco, Deguara, Simeon, Zgozi, Salem W., Garibaldi, Fulvio, Oray, Isik K., Karakulak, Firdes Saadet, Abid, Noureddine, Santos, Miguel N., Addis, Piero, Arrizabalaga, Haritz, and Tinti, Fausto (2018) Spatial dynamics and mixing of bluefin tuna in the Atlantic Ocean and Mediterranean Sea revealed using next-generation sequencing. Molecular Ecology Resources, 18 (3). pp. 620-638.

R

Rodrigues Filho, Luis Fernando da Silva, Feitosa, Leonardo Manir, Silva Nunes, Jorge Luiz, Onodera Palmeira, Ana Rita, Martins, Ana Paula Barbosa, Giarrizzo, Tommaso, Carvalho-Costa, Luís Fernando, Monteiro, Iann Leonardo Pinheiro, Gemaque, Romário, Gomes, Fernanda, Souza, Rosália Furtado C., Sampaio, Iracilda, and Sales, João Bráullio de Luna (2020) Molecular identification of ray species traded along the Brazilian Amazon coast. Fisheries Research, 223. 105407.

Rose, Emily, Simmonds, Mackenzie, Hayashida-Boyles, Alana L., and Masonjones, Heather D. (2019) Seasonal and spatial variation in the reproductive biology of the dwarf seahorse Hippocampus zosterae. Journal of Fish Biology, 95 (2). pp. 357-366.

Raby, Graham D., Messmer, Vanessa, Tobin, Andrew J., Hoey, Andrew S., Jutfelt, Fredrik, Sundin, Josefin, Cooke, Steven J., and Clark, Timothy D. (2018) Swim for it: effects of simulated fisheries capture on the post-release behaviour of four Great Barrier Reef fishes. Fisheries Research, 206. pp. 129-137.

Rodgers, G.G., Tenzing, P., and Clark, T.D. (2016) Experimental methods in aquatic respirometry: the importance of mixing devices and accounting for background respiration. Journal of Fish Biology, 88 (1). pp. 65-80.

S

Sih, Tiffany Lorraine, Williams, Ashley John, Hu, Yi, and Kingsford, Michael John (2022) High-resolution otolith elemental signatures in eteline snappers from valuable deepwater tropical fisheries. Journal of Fish Biology, 100 (6). pp. 1475-1496.

Snyder, S., Nadler, L. E., Bayley, J. S., Svendsen, M. B. S., Johansen, J. L., Domenici, P., and Steffensen, J. F. (2016) Effect of closed v. intermittent-flow respirometry on hypoxia tolerance in the shiner perch Cymatogaster aggregata. Journal of Fish Biology, 88 (1). pp. 252-264.

T

Takahashi, Miwa, Wakefield, Corey B., Newman, Stephen J., Hillcoat, Kyle B., Saunders, Benjamin J., and Harvey, Euan S. (2023) Utility of body and otolith morphometry to discriminate cryptic juveniles of two sympatric red snappers (Perciformes: Lutjanidae). Journal of Fish Biology, 103 (6). pp. 1312-1320.

Thi Thanh Vu, Nga (2021) Population genomics of the giant black tiger shrimp Penaeus monodon to understand wild fishery and aquaculture production. PhD thesis, James Cook University.

Tan, Cheryl K.Y., Cowley, Jeff A., and Jerry, Dean R. (2019) A magnetic bead-based DNA extraction protocol suitable for high-throughput genotyping in shrimp breeding programs. Genetics of Aquatic Organisms, 3 (2). pp. 47-56.

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.

V

Vij, Shubha, Purushothanman, Kathiresan, Sridatta, Prakki Sai Rama, and Jerry, Dean R. (2020) Transcriptomic analysis of gill and kidney from Asian seabass (Lates calcarifer) acclimated to different salinities reveals pathways involved with euryhalinity. Genes, 11 (7). 733.

W

Woodings, Laura N., Murphy, Nicholas P., Jeffs, Andrew, Suthers, Iain M., Liggins, Geoffrey, and Strugnell, Jan M. (2019) Distribution of Palinuridae and Scyllaridae phyllosoma larvae within the East Australian Current: a climate change hot spot. Marine and Freshwater Research, 70. pp. 1020-1033.