Abed, Jassim M., Ali, Atheer H., Yaseen, Ali T., Al-Faisal, Abbas, Mutlak, Falah, Jassim, Furat K., Jerry, Dean R., and Jawad, Laith A. (2024) 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)

Moran, Megan N., Jones, D.B., Jensen, S.A., Marcoli, R., and Jerry, D. R. (2024) Optimising commercial traits through gene editing in aquaculture: Strategies for accelerating genetic improvement. Reviews in Aquaculture. (In Press)

Jerry, Emily M., Karnaneedi, Shaymaviswanathan, Ruethers, Thimo, Jerry, Dean R., Condon, Kelly, and Lopata, Andreas L. (2024) Allergen Diversity and Abundance in Different Tissues of the Redclaw Crayfish (Cherax quadricarinatus). Foods, 13 (2). 315.

Saleh, Alzayat, Sheaves, Marcus, Jerry, Dean, and Rahimi Azghadi, Mostafa (2024) Applications of deep learning in fish habitat monitoring: A tutorial and survey. Expert Systems with Applications, 238. 121841.

Marc, Adrien F., Guppy, Jarrod L., Goldsbury, Julie, Rudd, Donna, Cate, Holly S., Paris, Damien B.B.P., and Jerry, Dean R. (2024) Characterization of sperm quality in captive-bred barramundi (Lates calcarifer): Effect on spawning performance and paternal contribution in mass-spawning events. Aquaculture, 585. 740717.

Arbon, P.M., Andrade Martinez, Maria, Garrett, M. Andrade, Jerry, D.R., and Condon, K. (2024) Determining patterns of tissue tropism for IHHNV, GAV and YHV-7 infection in giant black tiger shrimp (Penaeus monodon) using real-time RT-qPCR. Aquaculture, 584. 740680.

Saleh, Alzayat, Sheaves, Marcus, Jerry, Dean, and Rahimi Azghadi, Mostafa (2024) How to track and segment fish without human annotations: a self-supervised deep learning approach. Pattern Analysis and Applications, 27. 4.

Saleh, Alzayat, Hasan, Md Mehedi, Raadsma, Herman W., Khatkar, Mehar S., Jerry, Dean, and Rahimi Azghadi, Mostafa (2024) Prawn Morphometrics and Weight Estimation from Images using Deep Learning for Landmark Localization. Aquacultural Engineering, 106. 102391.

Mohammadi, Zohre, Bhati, Abhishek Singh, and Jerry, Dean (2024) A Pre-Science Style Model of Aquaculture Tourism Businesses. Tourism Planning & Development, 21 (2). pp. 245-253.

Arbon, P.M., Andrade Martinez, M., Jerry, D.R., and Condon, K. (2024) Towards a 'systems' approach for viral challenge experiments in shrimp: Reporting guidelines for publication. Reviews in Aquaculture, 16 (2). pp. 923-941.

Dorney, Ryley D., Johnston, Elecia B., Karnaneedi, Shaymaviswanathan, Ruethers, Thimo, Kamath, Sandip D., Gopi, Karthik, Mazumder, Debashish, Sammut, Jesmond, Jerry, Dean, Williamson, Nicholas A., Nie, Shuai, and Lopata, Andreas L. (2024) Variation in Shrimp Allergens: Place of Origin Effects on Food Safety Assessment. International Journal of Molecular Sciences, 25. 4531.

Chew, Xian Zhe, Gibson-Kueh, Susan, Jerry, Dean R., and Shen, Xueyan (2023) Comparison of intestinal bacterial communities in asymptomatic and diseased Asian seabass (Lates calcarifer) with chronic enteritis and mixed bacterial infections. Aquaculture, 572. 739516.

Vu, Nga T.T., Jerry, Dean R., Edmunds, Richard C., Jones, David B., and Zenger, Kyall R. (2023) Development of a global SNP resource for diversity, provenance, and parentage analyses on the Indo-Pacific giant black tiger shrimp (Penaeus monodon). Aquaculture, 563 (1). 738890.

Udayantha, H.M.V., Lee, Sukkyoung, Liyanage, D.S., Lim, Chaehyeon, Jeong, Taehyug, Omeka, W.K.M., Yang, Kyerim, Kim, Gaeun, Lee, Jihun, Nadarajapillai, Kishanthini, Ganeshalingam, Subothini, Park, Cheong-Uk, Lee, Jiwon, Oh, Seong-Rip, Gong, Po, Jang, Yeounghwan, Hyun, Jaemin, Park, Aejen, Koh, Hyoung-Bum, Kim, Mun-Kwan, Jones, David B., Massault, Cecile, Jerry, Dean R., and Lee, Jeehee (2023) Identification of candidate variants and genes associated with temperature tolerance in olive flounders by Genome-Wide Association Study (GWAS). Aquaculture, 576. 739858.

Saleh, Alzayat, Jones, David, Jerry, Dean, and Azghadi, Mostafa Rahimi (2023) MFLD-net: a lightweight deep learning network for fish morphometry using landmark detection. Aquatic Ecology, 57. pp. 913-931.

Leahy, Susannah M., Jerry, Dean R., Wedding, Brett B.C., Robins, Julie, Wright, Carole L., Sadekov, Aleksey, David, Stephen B., Jones, David B., Williams, Samuel M., Grauf, Steve, Pavich, Luke, McLennan, Mark, Sellini, Michelle J., Goldsbury, Julie A., and Saunders, Richard J. (2023) Multimethod approach to advance provenance determination of fish in stocked systems. Canadian Journal of Fisheries and Aquatic Sciences, 80. pp. 1410-1424.

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.

Arbon, P.M., Andrade Martinez, M. Andrade, Jerry, D.R., and Condon, K. (2023) Towards a ‘systems’ approach for viral challenge experiments in shrimp: Reporting guidelines for publication. Reviews in Aquaculture, 16 (2). pp. 923-941.

Marcoli, R., Jones, D.B., Massault, C., Marc, A.F., Moran, M., Harrison, P.J., Cate, H.S., Lopata, A.L., and Jerry, D.R. (2023) The skin structure in multiple color variants of barramundi (Lates calcarifer): A histological, immunohistochemical and ultrastructural overview. Aquaculture, 576. 739859.

Massault, Cecile, Jeffrey, Cara, Jones, David B., Barnard, Roger, Strugnell, Jan M., Zenger, Kyall R., and Jerry, Dean R. (2022) Non-invasive DNA collection for parentage analysis for bivalves: A case study from the silver-lipped pearl oyster (Pinctada maxima). Aquaculture, 552. 738036.

Budd, Alyssa M., Guppy, Jarrod L., Thepot, Valentin, Domingos, Jose A., and Jerry, Dean R. (2022) Delayed effect of low rearing temperature on gonadal DNA methylation in juvenile barramundi (Lates calcarifer). Aquaculture, 560. 738541.

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.

Morrissey, Scott J., Jerry, Dean R., and Kingsford, Michael J. (2022) Genetic Detection and a Method to Study the Ecology of Deadly Cubozoan Jellyfish. Diversity, 14 (12). 1139.

Hasan, Md Mehedi, Raadsma, Herman W., Thomson, Peter C., Wade, Nicholas M., Jerry, Dean R., and Khatkar, Mehar S. (2022) Genetic parameters of color phenotypes of black tiger shrimp (Penaeus monodon). Frontiers in Genetics, 13. 1002346.

Huerlimann, Roger, Cowley, Jeff A., Wade, Nicholas M., Wang, Yinan, Kasinadhuni, Naga, Chan, Chon Kit Kenneth, Jabbari, Jafar S., Siemering, Kirby, Gordon, Lavinia, Tinning, Matthew, Montenegro, Juan D., Maes, Gregory E., Sellars, Melony J., Coman, Gregory J., McWilliam, Sean, Zenger, Kyall R., Khatkar, Mehar S., Raadsma, Herman W., Donovan, Dallas, Krishna, Gopala, and Jerry, Dean R. (2022) Genome assembly of the Australian black tiger shrimp (Penaeus monodon) reveals a novel fragmented IHHNV EVE sequence. G3: Genes, Genomes, Genetics, 12 (4). jkac034.

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.

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.

Arbon, P.M., Condon, K., Andrade Martinez, M., and Jerry, D.R. (2022) Molecular detection of six viral pathogens from Australian wild sourced giant black tiger shrimp (Penaeus monodon) broodstock. Aquaculture, 548. 737651.

Cooper, Madalyn K., Villacorta-Rath, Cecilia, Burrows, Damien, Jerry, Dean R., Carr, Leah, Barnett, Adam, Huveneers, Charlie, and Simpfendorfer, Colin A. (2022) Practical eDNA sampling methods inferred from particle size distribution and comparison of capture techniques for a Critically Endangered elasmobranch. Environmental DNA, 4 (5). pp. 1011-1023.

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.

Condon, Kelly, Huerlimann, Roger, Charles, Tony, Lowrey, Ryan, Arbon, Phoebe, and Jerry, Dean R. (2022) Using bacterial whole genome sequencing to identify toxin genes associated with disease outbreaks in black tiger shrimp (Penaeus monodon) aquaculture production. Aquaculture, 546. 737255.

Marín-Riffo, Maria C., Raadsma, Herman W., Jerry, Dean R., Coman, Greg J., and Khatkar, Mehar S. (2021) Bioeconomic modelling of hatchery, grow-out and combined business of Australian black tiger shrimp Penaeus monodon farming. Reviews in Aquaculture, 13 (3). pp. 1695-1708.

Arbon, Phoebe M., Silva, Catarina N.S., Jones, David B., Jaccoud, Damian, Gervis, Mark, Jerry, Dean R., and Strugnell, Jan M. (2021) Development and validation of a SNP-based genotyping tool for pedigree establishment in Australian greenlip abalone Haliotis laevigata Donovan, 1808. Aquaculture Reports, 20. 100746.

Banh, Quyen Q.T., Domingos, Jose A., Pinto, Ricardo C.C., Nguyen, Kien T., and Jerry, Dean R. (2021) Dietary 17 β-oestradiol and 17 α-ethinyloestradiol alter gonadal morphology and gene expression of the two sex-related genes, dmrt1 and cyp19a1a, in juvenile barramundi (Lates calcarifer Bloch). Aquaculture Research, 52 (4). pp. 1414-1430.

Terence, Celestine, Domingos, Jose A., Angelo Uichanco, Joseph, Monteil, Yann, Monteil, Loïc, De Braux, Emmanuel, Banh, Quyen Q.T., Gibson-Kueh, Susan, and Jerry, Dean R. (2021) Early sex change of barramundi Lates calcarifer farmed in Singapore. Aquaculture Reports, 20. 100712.

Domingos, Jose A., Goldsbury, Julie A., Bastos Gomes, Giana, Smith, Brett G., Tomlinson, Christopher, Bade, Tim, Sander, Corey, Forrester, Justin, and Jerry, Dean R. (2021) Genotype by environment interactions of harvest growth traits for barramundi (Lates calcarifer) commercially farmed in marine vs. freshwater conditions. Aquaculture, 532. 735989.

Cooper, Madalyn K., Huerlimann, Roger, Edmunds, Richard C., Budd, Alyssa M., Le Port, Agnes, Kyne, Peter M., Jerry, Dean R., and Simpfendorfer, Colin A. (2021) Improved detection sensitivity using an optimal eDNA preservation and extraction workflow and its application to threatened sawfishes. Aquatic Conservation: marine and freshwater ecosystems, 31 (8). pp. 2131-2148.

Banh, Quyen Q. T., Guppy, Jarrod L., Domingos, Jose A., Budd, Alyssa M., Pinto, Ricardo C. C., Marc, Adrien F., and Jerry, Dean R. (2021) Induction of precocious females in the protandrous barramundi (Lates calcarifer) through implants containing 17β-estradiol - effects on gonadal morphology, gene expression and DNA methylation of key sex genes. Aquaculture, 539. 736601.

Infante Villamil, Sandra, Huerlimann, Roger, and Jerry, Dean R. (2021) Microbiome diversity and dysbiosis in aquaculture. Reviews in Aquaculture, 13 (2). pp. 1077-1096.

Karnaneedi, Shaymaviswanathan, Huerlimann, Roger, Johnston, Elecia B., Nugraha, Roni, Ruethers, Thimo, Taki, Aya C., Kamath, Sandip D., Wade, Nicholas M., Jerry, Dean R., and Lopata, Andreas L. (2021) Novel allergen discovery through comprehensive de novo transcriptomic analyses of five shrimp species. International Journal of Molecular Sciences, 22 (1). 32.

Vu, Nga T.T., Zenger, Kyall R., Nunes Soares Silva, Catarina N.S., Guppy, Jarrod L., and Jerry, Dean R. (2021) Population structure, genetic connectivity, and signatures of local adaptation of the giant black tiger shrimp (Penaeus monodon) throughout the indo-pacific region. Genome Biology and Evolution, 13 (10). evab214.

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.

Domingos, Jose A., Shen, Xueyan, Terence, Celestine, Senapin, Saengchan, Dong, Ha Thanh, Tan, Marie R., Gibson-Kueh, Susan, and Jerry, Dean R. (2021) Scale Drop Disease Virus (SDDV) and Lates calcarifer Herpes Virus (LCHV) coinfection downregulate immune-relevant pathways and cause splenic and kidney necrosis in barramundi under commercial farming conditions. Frontiers in Genetics, 12. 666897.

Marc, Adrien F., Guppy, Jarrod L., Bauer, Paige, Mulvey, Peter, Jerry, Dean R., and Paris, Damien B.B.P. (2021) Validation of advanced tools to evaluate sperm function in barramundi (Lates calcarifer). Aquaculture, 531. 735802.

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.

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.

Guppy, Jarrod L., Jones, David B., Kjeldsen, Shannon R., Le Port, Agnes, Khatkar, Mehar S., Wade, Nicholas M., Sellars, Melony J., Raadsma, Herman W., Jerry, Dean R., and Zenger, Kyall R. (2020) Development and validation of a RAD-Seq target-capture based genotyping assay for routine application in advanced black tiger shrimp (Penaeus monodon) breeding programs. BMC Genomics, 21. 541.

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.

Vu, Nga T.T., Zenger, Kyall R., Guppy, Jarrod L., Sellars, Melony J., Nunes Soares Silva, Catarina N.S., Kjeldsen, Shannon R., and Jerry, Dean R. (2020) Fine-scale population structure and evidence for local adaptation in Australian giant black tiger shrimp (Penaeus monodon) using SNP analysis. BMC Genomics, 21. 669.

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.

Huerlimann, Roger, Maes, Gregory E., Maxwell, Michael J., Mobli, Mehdi, Launikonis, Bradley S., Jerry, Dean R., and Wade, Nicholas M. (2020) Multi-species transcriptomics reveals evolutionary diversity in the mechanisms regulating shrimp tail muscle excitation-contraction coupling. Gene, 752. 144765.

Cobcroft, Jennifer, Bell, Rob, Fitzgerald, Jessica, and Jerry, Dean (2020) Northern Australia aquaculture situational analysis. Report. CRCNA, Townsville, QLD, Australia.

Nayfa, Maria G., Jones, David B., Lind, Curtis E., Benzie, John A.H., Jerry, Dean R., and Zenger, Kyall R. (2020) Pipette and paper: combining molecular and genealogical methods to assess a Nile tilapia (Oreochromis niloticus) breeding program. Aquaculture, 523. 735171.

Chen, Jun Yu, Zeng, Chaoshu, Jerry, Dean R., and Cobcroft, Jennifer M. (2020) Recent advances of marine ornamental fish larviculture: broodstock reproduction, live prey and feeding regimes, and comparison between demersal and pelagic spawners. Reviews in Aquaculture, 12 (3). pp. 1518-1541.

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.

Jones, David B., Nguyen, Huu, Khatkar, Mehar, Simma, David, Jerry, Dean, Raadsma, Herman, Van Der Steen, Hein, Prochaska, Jeffrey, and Zenger, Kyall (2020) The identification of a major sex QTL in the white-leg shrimp, Litopenaeus vannamei. Aquaculture, 529. 735673.

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.

Konovalov, Dmitry A., Saleh, Alzayat, Efremova, Dina B., Domingos, Jose A., and Jerry, Dean R. (2019) Automatic weight estimation of harvested fish from images. In: Proceedings of the International Conference on Digital Image Computing. pp. 308-314. From: DICTA 2019: International Conference on Digital Image Computing: Techniques and Applications, 2-4 December 2019, Perth, WA, Australia.

Infante-Villamil, Sandra, Huerlimann, Roger, Condon, Kelly, Maes, Gregory E., and Jerry, Dean R. (2019) Bacterial signatures of productivity decay in Penaeus monodon ponds infected with PirA toxin. Aquaculture, 511. 734202.

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.

Marc, A., Guppy, J., Jerry, D., Mulvey, P., Bauer, P., and Paris, D. (2019) Evaluating barramundi (Lates calcarifer) sperm quality using high throughput advanced reproductive tools. In: [Abstracts from Aquaculture Europe]. From: Aquaculture Europe 19, 8-10 October 2019, Berlin, Germany.

Berry, Sarah E., Wade, Nicholas, Cedric, Simon, Foote, Andrew, Jerry, Dean R., and Wade, Nicholas M. (2019) Evaluation of baseline haemolymph biochemistry, volume and total body energetics to determine an accurate condition index in the black tiger shrimp, Penaeus monodon. Comparative Biochemistry and Physiology-Part B: biochemistry & molecular biology, 228. pp. 1-9.

Gomes, Giana Bastos, Hutson, Kate S., Domingos, Jose A., Infante Villamil, Sandra, Huerlimann, Roger, Miller, Terrence L., and Jerry, Dean (2019) Parasitic protozoan interactions with bacterial microbiome in a tropical fish farm. Aquaculture, 502. pp. 196-201.

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.

Lapico, Adrian, Sankupellay, Mangalam, Cianciullo, Louis, Myers, Trina, Konovalov, Dmitry A., Jerry, Dean R., Toole, Preston, Jones, David B., and Zenger, Kyall R. (2019) Using image processing to automatically measure pearl oyster size for selective breeding. In: Proceedings of the International Conference on Digital Image Computing. pp. 90-97. From: DICTA 2019: International Conference on Digital Image Computing: Techniques and Applications, 2-4 December 2019, Perth, WA, Australia.

Hua, Katheline, Cobcroft, Jennifer M., Cole, Andrew, Condon, Kelly, Jerry, Dean R., Mangott, Arnold, Praeger, Christina, Vucko, Matthew J., Zeng, Chaoshu, Zenger, Kyall, and Strugnell, Jan M. (2019) The future of aquatic protein: implications for protein sources in aquaculture diets. One Earth, 1 (3). pp. 316-329.

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.

Konovalov, D.A., Domingos, J.A., White, R.D., and Jerry, D.R. (2018) Automatic scaling of fish images. In: Proceedings of the 2nd International Conference on Advances in Image Processing. pp. 48-53. From: ICAIP 18: 2nd International Conference on Advances in Image Processing, 16-18 June 2018, Chengdu, China.

Konovalov, Dmitry A., Saleh, Alzayat, Domingos, Jose A., White, Ron D., and Jerry, Dean R. (2018) Estimating mass of harvested Asian seabass Lates calcarifer from images. World Journal of Engineering and Technology, 6 (3). pp. 15-23.

Huerlimann, Roger, Wade, Nicholas M., Gordon, Lavinia, Montenegro, Juan D., Goodall, Jake, McWilliam, Sean, Tinning, Matthew, Siemering, Kirby, Giardina, Erika, Donovan, Dallas, Sellars, Melony J., Cowley, Jeff A., Condon, Kelly, Coman, Greg J., Khatkar, Mehar S., Raadsma, Herman W., Maes, Gregory E., Zenger, Kyall R., and Jerry, Dean R. (2018) De novo assembly, characterization, functional annotation and expression patterns of the black tiger shrimp (Penaeus monodon) transcriptome. Scientific Reports, 8. 13553.

Basiita, Rose K., Zenger, Kyall R., Mwanja, Matthew T., and Jerry, Dean R. (2018) Gene flow and genetic structure in Nile perch, Lates niloticus, from African freshwater rivers and lakes. PLoS ONE, 13 (7). e0200001.

Al-Breiki, Rufaida Dhuhai, Kjeldsen, Shannon R., Afzal, Hasifa, Al Hinai, Manal Saif, Zenger, Kyall R., Jerry, Dean R., Al-Abri, Mohammed Ali, and Delghandi, Madjid (2018) Genome-wide SNP analyses reveal high gene flow and signatures of local adaptation among the scalloped spiny lobster (Panulirus homarus) along the Omani coastline. BMC Genomics, 19. 690.

Lal, Monal M., Southgate, Paul C., Jerry, Dean R., and Zenger, Kyall R. (2018) Genome-wide comparisons reveal evidence for a species complex in the black-lip pearl oyster Pinctada margaritifera (Bivalvia: Pteriidae). Scientific Reports, 8. 191.

Noble, T.H., Stratford, C.N., Wade, N., Cowley, J.A., Sellars, M.J., Coman, G.J., and Jerry, D.R. (2018) PCR testing of single tissue samples can result in misleading data on gill-associated virus infection loads in shrimp. Aquaculture, 492. pp. 91-96.

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.

Guppy, Jarrod L., Jones, Dave B., Jerry, Dean R., Wade, Nicholas M., Raadsma, Herman W., Huerlimann, Roger, and Zenger, Kyall R. (2018) The state of "omics" research for farmed penaeids: advances in research and impediments to industry utilization. Frontiers in Genetics, 9. 282.

Konovalov, D.A., Domingos, J.A., Bajema, C., White, R.D., and Jerry, D.R. (2017) Ruler detection for automatic scaling of fish images. In: Proceedings of the International Conference on Advances in Image Processing. pp. 90-95. From: ICAIP 2017: International Conference on Advances in Image Processing, 25-27 August 2017, Bangkok, Thailand.

Khatkar, M.S., Zenger, K.R., Jones, D.B., Prochaska, Jeff, van der Steen, H.A.M., Jerry, D.R., and Raadsma, H.W. (2017) Quantitative genomic analyses in the pacific whiteleg shrimp litopenaeus vannamei. In: Proceedings of the Conference of the Association for the Advancement of Animal Breeding and Genetics (22) pp. 121-124. From: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, 2-5 July 2017, Townsville, QLD, Australia.

Khatkar, M.S., Jones, D.B., Toole, P.B., Raadsma, H.W., Jerry, D.R., and Zenger, K.R. (2017) Reconstruction of unknown donor genome from chimeric pearl sac tissue and host genotypes in pinctada maxima. In: Proceedings of the Association for the Advancement of Animal Breeding and Genetics. pp. 445-448. From: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, 2-5 July 2017, Townsville, QLD, Australia.

Zenger, K.R., Khatkar, M.S., Jerry, D.R., and Raadsma, H.W. (2017) The next wave in selective breeding: implementing genomic selection in aquaculture. In: Proceedings of the Conference of the Association for the Advancement of Animal Breeding and Genetics. pp. 105-112. From: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, 2-5 July 2017, Townsville, QLD, Australia.

Bastos Gomes, G., Jerry, D.R., Miller, T.L., and Hutson, K.S. (2017) Current status of parasitic ciliates Chilodonella spp. (Phyllopharyngea: Chilodonellidae) in freshwater fish aquaculture. Journal of Fish Diseases, 40 (5). pp. 703-715.

Bastos Gomes, Giana, Miller, Terrence L., Vaughan, David B., Jerry, Dean R., McCowan, Christina, Bradley, Tracey L., and Hutson, Kate S. (2017) Evidence of multiple species of Chilodonella (Protozoa, Ciliophora) infecting Australian farmed freshwater fishes. Veterinary Parasitology, 237. pp. 8-16.

Basiita, Rose Komugisha, Zenger, Kyall Richard, and Jerry, Dean Robert (2017) Populations genetically rifting within a complex geological system: the case of strong structure and low genetic diversity in the migratory freshwater catfish, Bagrus docmak, in East Africa. Ecology and Evolution, 7 (16). pp. 6172-6187.

Noble, T.H., Coman, G.J., Cowley, J.A., Wade, N., Sellars, M., and Jerry, D.R. (2017) Comparison of methods for uniformly challenging Black Tiger shrimp (Penaeus monodon) with gill-associated virus. Aquaculture, 473. pp. 191-196.

Jones, D.B., Toole, P.B., Khatkar, M.S., Raadsma, H.W., Jerry, D.R., and Zenger, K.R. (2017) Developing a genomic selection breeding program for complex pearl colour traits within the silver-lipped pearl oyster. In: Proceedings of the Conference of the Association for the Advancement of Animal Breeding and Genetics. pp. 537-540. From: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, 2-5 July 2017, Townsville, QLD, Australia.

Jones, D.B., Zenger, K.R., Khatkar, M.S., Raadsma, H.W., van der Steen, H.A.M., Prochaska, J., Fôret, S., and Jerry, D.R. (2017) Development of a low density commercial genotyping array for the white legged shrimp, Litopenaeus vannamei. In: Proceedings of the Conference of the Association for the Advancement of Animal Breeding and Genetics. pp. 117-120. From: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, 2-5 July 2017, Townsville, QLD, Australia.

Nowland, Samantha J., Southgate, Paul C., Basiita, Rose K., and Jerry, Dean R. (2017) Elucidation of fine-scale genetic structure of sandfish (Holothuria scabra) populations in Papua New Guinea and northern Australia. Marine and Freshwater Research, 68 (10). pp. 1901-1911.

Banh, Quyen Q., Domingos, Jose A., Zenger, Kyall R., and Jerry, Dean R. (2017) Morphological changes and regulation of the genes dmrt1 and cyp11b during the sex differentiation of barramundi (Lates calcarifer Bloch). Aquaculture, 479. pp. 75-84.

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.

Bastos Gomes, Giana, Hutson, Kate S., Domingos, Jose A., Chung, Catherine, Hayward, Scott, Miller, Terrance L., and Jerry, Dean R. (2017) Use of environmental DNA (eDNA) and water quality data to predict protozoan parasites outbreaks in fish farms. Aquaculture, 479. pp. 467-473.

Jones, David B., Jerry, Dean R., Khatkar, Mehar, Raadsma, Herman W., van der Steen, Hein, Prochaska, Jeffrey, Fôret, Sylvain, and Zenger, Kyall R. (2017) A comparative integrated gene-based linkage and locus ordering by linkage disequilibrium map for the Pacific white shrimp, Litopenaeus vannamei. Scientific Reports, 7. 10360.

Welsh, Stuart A., Jerry, Dean R., Burrows, Damien W., and Rourke, Meaghan L. (2017) A new species of freshwater eel-tailed catfish of the genus Tandanus (Teleostei: Plotosidae) from coastal rivers of mid-northern New South Wales, Australia. Copeia, 105 (2). pp. 229-236.

Robson, Heather L.A., Noble, Tansyn H., Saunders, Richard J., Robson, Simon K.A., Burrows, Damien W., and Jerry, Dean R. (2016) Fine-tuning for the tropics: application of eDNA technology for invasive fish detection in tropical freshwater ecosystems. Molecular Ecology Resources, 16 (4). pp. 922-932.

Simpfendorfer, Colin A., Kyne, Peter M., Noble, Tansyn H., Goldsbury, Julie, Basiita, Rose K., Lindsay, Rob, Shields, Amos, Perry, Camillus, and Jerry, Dean R. (2016) Environmental DNA detects critically endangered largetooth sawfish in the wild. Endangered Species Research, 30. pp. 109-116.

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.

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.

Loughnan, Shannon R., Smith-Keune, Carolyn, Jerry, Dean R., Beheregaray, Luciano B., and Robinson, Nicholas A. (2016) Genetic diversity and relatedness estimates for captive barramundi (Lates calcarifer, Bloch) broodstock informs efforts to form a base population for selective breeding. Aquaculture Research, 47 (11). pp. 3570-3584.

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.

Delghandi, Madjid, Afzal, Hasifa, Al Hinai, Manal Saif Nasser, Al-Breiki, Rafaida Dhuhai Gharib, Jerry, Dean R., and Dao, Hoc Tan (2016) Novel polymorphic microsatellite markers for Panulirus ornatus and their cross-species primer amplification in Panulirus homarus. Animal Biotechnology, 27 (4). pp. 310-314.

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.

Delghandi, M., Goddard, S., Jerry, D.R., Dao, H.T., Afzal, H., and Al-Jardani, S.S. (2015) Isolation, characterization, and multiplexing of novel microsatellite markers for the tropical scalloped spiny lobster (Panulirus homarus). Genetics and Molecular Research, 14 (4). 5944. pp. 19066-19070.

Thépot, Valentin, and Jerry, Dean R. (2015) The effect of temperature on the embryonic development of barramundi, the Australian strain of Lates calcarifer (Bloch) using current hatchery practices. Aquaculture Reports, 2. pp. 132-138.

Nowland, Samantha J., Jerry, Dean R., and Southgate, Paul C. (2015) A non-destructive tissue sampling technique for holothurians to facilitate extraction of DNA for genetic analysis. Invertebrate Biology, 134 (3). pp. 252-259.

Alajmi, Fahad, Zeng, Chaoshu, and Jerry, Dean R. (2015) Domestication as a novel approach for improving the cultivation of calanoid copepods: a case study with Parvocalanus crassirostris. PLoS ONE, 10 (7). e0133269. pp. 1-16.

Huerlimann, Roger, Zenger, Kyall R., Jerry, Dean R., and Heimann, Kirsten (2015) Phylogenetic analysis of nucleus-encoded acetyl-CoA carboxylases targeted at the cytosol and plastid of algae. PLoS ONE, 10 (7). e0131099. pp. 1-10.

Basiita, Rose K., Zenger, Kyall R., Mwanja, Matthew T., and Jerry, Dean R. (2015) Development of genome-wide microsatellite genetic resources in a commercially important African freshwater fish species – the Nile perch, Lates niloticus. Animal Genetics, 46 (3). p. 340.

Budd, Alyssa M., Banh, Quyen Q., Domingos, Jose A., and Jerry, Dean R. (2015) Sex control in fish: approaches, challenges and opportunities for aquaculture. Journal of Marine Science and Engineering, 3 (2). jmse3020329. pp. 329-355.

Robson, Heather, Basiita, Rose, Noble, Tansyn, Burrows, Damien, and Jerry, Dean (2015) Environmental DNA (eDNA) survey of Tilapia in northern NSW. Report. James Cook University, Townsville, QLD, Australia.

Jerry, Dean, Noble, Tansyn, Basiita, Rose, Robson, Heather, and Burrows, Damien (2015) Environmental DNA (eDNA) survey of Tilapia infestations in the Moranbah/Isaac region. Report. James Cook University, Townsville, QLD, Australia.

Robson, Heather, Basiita, Rose, Noble, Tansyn, Burrows, Damien, and Jerry, Dean (2015) Environmental DNA (eDNA) survey of Tilapia on the mid coast (Geraldton region) of Western Australia. Report. James Cook University, Townsville, QLD, Australia.

Jerry, Dean, Noble, Tansyn, Robson, Heather, and Burrows, Damien (2015) Environmental DNA (eDNA) survey of the Tilapia in the Cudgeon Region, NSW. Report. James Cook University, Cairns, QLD, Australia.

Dao, Hoc Tan, Smith-Keune, Carolyn, Wolanski, Eric, Jones, Clive M., and Jerry, Dean R. (2015) Oceanographic currents and local ecological knowledge indicate, and genetics does not refute, a contemporary pattern of larval dispersal for the ornate spiny lobster, Panulirus ornatus in the south-east Asian archipelago. PLoS ONE, 10 (5). e0124568. pp. 1-19.

Domingos, Jose A., Zenger, Kyall R., and Jerry, Dean R. (2015) Whole-genome shotgun sequence assembly enables rapid gene characterization in the tropical fish barramundi, Lates calcarifer. Animal Genetics, 46 (4). pp. 468-469.

Noble, Tansyn, Robson, Heather, Saunders, Richard, and Jerry, Dean (2015) The utility of eDNA as a tilapia surveillance tool. Report. Invasive Animalc Cooperative Research Centre, Canberra, ACT, Australia.

Sharp, Michael F., Kamath, Sandip D., Koeberl, Martina, Jerry, Dean R., O'Hehir, Robyn E., Campbell, Dianne E., and Lopata, Andreas L. (2014) Differential IgE binding to isoallergens from Asian seabass (Lates calcarifer) in children and adults. Molecular Immunology, 62 (1). pp. 77-85.

Jones, David B., Jerry, Dean R., Khatkar, Mehar S., Moser, Gerhard, Raadsma, Herman W., Taylor, Joseph J., and Zenger, Kyall R. (2014) Determining genetic contributions to host oyster shell growth: quantitative trait loci and genetic association analysis for the silver-lipped pearl oyster, Pinctada maxima. Aquaculture, 434. pp. 367-375.

Lavoué, Sébastien, Nakayama, Kouji, Jerry, Dean R., Yamanoue, Yusuke, Yagishita, Naoki, Suzuki, Nobuaki, Nishida, Mutsumi, and Miya, Masaki (2014) Mitogenomic phylogeny of the Percichthyidae and Centrarchiformes (Percomorphaceae): comparison with recent nuclear gene-based studies and simultaneous analysis. Gene, 549 (1). pp. 46-57.

Jones, David B., Jerry, Dean R., Khatkar, Mehar S., Moser, Gerhard, Raadsma, Herman W., Taylor, Joseph J., and Zenger, Kyall R. (2014) Quantitative trait loci and genetic association analysis reveals insights into complex pearl quality traits in donor silver-lipped pearl oysters. Aquaculture, 434. pp. 476-485.

Alajmi, Fahad, Zeng, Chaoshu, and Jerry, Dean R. (2014) Improvement in the reproductive productivity of the tropical calanoid copepod Parvocalanus crassirostris through selective breeding. Aquaculture, 420–421. pp. 18-23.

Huerlimann, Roger, Steinig, Eike J., Loxton, Heather, Zenger, Kyall R., Jerry, Dean R., and Heimann, Kirsten (2014) Effects of growth phase and nitrogen starvation on expression of fatty acid desaturases and fatty acid composition of Isochrysis aff. galbana (TISO). Gene, 545 (1). pp. 36-44.

Huerlimann, Roger, Steinig, Eike J., Loxton, Heather, Zenger, Kyall, Jerry, Dean R., and Heimann, Kirsten (2014) The effect of nitrogen limitation on acetyl-CoA carboxylase expression and fatty acid content in Chromera velia and Isochrysis aff. galbana (TISO). Gene, 543 (2). pp. 204-211.

Welsh, Stuart A., Jerry, Dean R., and Burrows, Damien W. (2014) A new species of freshwater eel-tailed catfish of the genus Tandanus (Teleostei: Plotosidae) from the wet tropics region of Eastern Australia. Copeia, 1. pp. 136-142.

Jerry, Dean R. (2014) Biology and Culture of Asian Seabass Lates calcarifer. CRC Press, Boca Raton, FL, USA.

Tuller, James, De Santis, Christian, and Jerry, Dean R. (2014) Dietary influence of Fucoidan supplementation on growth of Lates calcarifer (Bloch). Aquaculture Research, 45 (4). pp. 749-754.

Domingos, Jose A., Smith-Keune, Carolyn, Harrison, Paul, and Jerry, Dean R. (2014) Early prediction of long-term family growth performance based on cellular processes: a tool to expedite the establishment of superior foundation broodstock in breeding programs. Aquaculture, 428-429. pp. 88-96.

Jerry, Dean, Noble, Tansyn, Robson, Heather, and Burrows, Damien (2014) Environmental DNA (eDNA) survey of Tilapia in the lower Pioneer catchment. Report. James Cook University, Townsville, QLD, Australia.

Jerry, Dean, Noble, Tansyn, Robson, Heather, and Burrows, Damien (2014) Environmental DNA (eDNA) survey of Tilapia infestations in the Fitzroy River Basin. Report. James Cook University, Townsville, QLD, Australia.

Noble, Tansyn, Robson, Heather, Burrows, Damien, and Jerry, Dean (2014) Environmental DNA (eDNA) survey of the Tilapia in the Fitzroy Basin. Report. James Cook University, Townsville, QLD, Australia.

Domingos, Jose A., Smith-Keune, Carolyn, and Jerry, Dean R. (2014) Fate of genetic diversity within and between generations and implications for DNA parentage analysis in selective breeding of mass spawners: a case study of commercially farmed barramundi, Lates calcarifer. Aquaculture, 424-425. pp. 174-182.

Noble, T.H., Smith-Keune, C., and Jerry, D.R. (2014) Genetic investigation of the large-scale escape of a tropical fish, barramundi Lates calcarifer, from a sea-cage facility in northern Australia. Aquaculture Environment Interactions, 5 (2). pp. 173-183.

Todd, Erica V., Blair, David, and Jerry, Dean R. (2014) Influence of drainage divides versus arid corridors on genetic structure and demography of a widespread freshwater turtle, Emydura macquarii krefftii, from Australia. Ecology and Evolution, 4 (5). pp. 606-622.

Todd, Erica V., Blair, David, Georges, Arthur, Lukoschek, Vimoksalehi, and Jerry, Dean R. (2014) A biogeographical history and timeline for the evolution of Australian snapping turtles (Elseya: Chelidae) in Australia and New Guinea. Journal of Biogeography, 41 (5). pp. 905-918.

Jerry, Dean R., and Smith-Keune, Carolyn (2014) The genetics of Asian seabass. In: Jerry, Dean R., (ed.) Biology and Culture of Asian Seabass Lates Calcarifer. CRC Press, Boca Raton, FL, USA, pp. 137-177.

Jones, David B., Jerry, Dean R., Forêt, Sylvain, Konovalov, Dmitry A., and Zenger, Kyall R. (2013) Genome-wide SNP validation and mantle tissue transcriptome analysis in the silver-lipped pearl oyster, Pinctada maxima. Marine Biotechnology, 15 (6). pp. 647-658.

Jones, David B., Jerry, Dean R., Khatkar, Mehar S., Raadsma, Herman W., and Zenger, Kyall R. (2013) A high-density SNP genetic linkage map for the silver-lipped pearl oyster, Pinctada maxima: a valuable resource for gene localisation and marker-assisted selection. BMC Genomics, 14. 810. pp. 1-18.

Botté, Emmanuelle S., Smith-Keune, Carolyn, and Jerry, Dean R. (2013) Temperature: a prolonged confounding factor on cholinesterase activity in the tropical reef fish Acanthochromis polyacanthus. Aquatic Toxicology, 140-141. pp. 337-339.

Todd, Erica V., Blair, David, Farley, Sharon, Farrington, Lachlan, FitzSimmons, Nancy N., Georges, Arthur, Limpus, Colin J., and Jerry, Dean R. (2013) Contemporary genetic structure reflects historical drainage isolation in an Australian snapping turtle, Elseya albagula. Zoological Journal of the Linnean Society, 169 (1). pp. 200-214.

Newton, James R., Zenger, Kyall R., and Jerry, Dean R. (2013) Next-generation transcriptome profiling reveals insights into genetic factors contributing to growth differences and temperature adaptation in Australian populations of barramundi (Lates calcarifer). Marine Genomics, 11. pp. 45-52.

Loughnan, Shannon R., Domingos, Jose A., Smith-Keune, Carolyn, Forrester, Justin P., Jerry, Dean R., Beheregaray, Luciano B., and Robinson, Nicholas A. (2013) Broodstock contribution after mass spawning and size grading in barramundi (Lates calcarifer, Bloch). Aquaculture, 404-405. pp. 139-149.

Domingos, Jose A., Smith-Keune, Carolyn, Robinson, Nicholas, Loughnan, Shannon, Harrison, Paul, and Jerry, Dean R. (2013) Heritability of harvest growth traits and genotype–environment interactions in barramundi, Lates calcarifer (Bloch). Aquaculture, 402-403. pp. 66-75.

Dao, Hoc Tan, Todd, Erica V., and Jerry, Dean R. (2013) Characterization of polymorphic microsatellite loci for the spiny lobster Panulirus spp. and their utility to be applied to other Panulirus lobsters. Conservation Genetics Resources, 5 (1). pp. 43-46.

Yarmohammadi, M., Shabani, A., Pourkazemi, M., Soltanloo, H., Imanpour, M.R., Ramezanpour, S., Smith-Keune, C., and Jerry, D.R. (2013) Effects of starvation and re-feeding on compensatory growth performance, plasma metabolites and IGF-I gene expression of Persian sturgeon (Acipenser persicus, Borodin 1897). Iranian Journal of Fisheries Sciences, 12 (2). pp. 465-483.

Hobbs, Jean-Paul, van Herwerden, Lynne, Jerry, Dean R., Jones, Geoffrey P., and Munday, Philip L. (2013) High genetic diversity in geographically remote populations of endemic and widespread coral reef angelfishes (genus: Centropyge). Diversity, 5 (1). pp. 39-50.

Jerry R., Dean, Smith-Keune, Carolyn, Hodgson, Lauren, Pirozzi, Igor, Carton, A. Guy, Hutson, Kate S., Brazenor, Alexander K., Trujillo Gonzalez, Alejandro, Gamble, Stephen, Collins, Geoff, and Vanderwal, Jeremy (2013) Vulnerability of an Iconic Australian Finfish (Barramundi - Lates calcarifer) and Aligned Industries to Climate Change across Tropical Australia. Report. Fisheries Research and Development Corporation, Douglas, QLD, Australia.

Lind, Curtis E., Evans, Brad S., Elphinstone, Martin S., Taylor, Joseph J.U., and Jerry, Dean R. (2012) Phylogeography of a pearl oyster (Pinctada maxima) across the Indo-Australian Archipelago: evidence of strong regional structure and population expansions but no phylogenetic breaks. Biological Journal of the Linnean Society, 107 (3). pp. 632-646.

de Santis, Christian, B. Gomes, Giana, and Jerry, Dean R. (2012) Abundance of myostatin gene transcripts and their correlation with muscle hypertrophy during the development of barramundi, Lates calcarifer. Comparative Biochemistry and Physiology-Part B: biochemistry & molecular biology, 163 (1). pp. 101-107.

Newton, J.R., De Santis, C., and Jerry, D.R. (2012) The gene expression response of the catadromous perciform barramundi Lates calcarifer to an acute heat stress. Journal of Fish Biology, 81 (1). pp. 81-93.

Domingos, J.A., Fromm, P., Smith-Keune, C., and Jerry, D.R. (2012) A robust flow-cytometric protocol for assessing growth rate of hatchery-reared barramundi Lates calcarifer larvae. Journal of Fish Biology, 80 (6). pp. 2253-2266.

Jerry, Dean R., Kvingedal, Renate, Lind, Curtis E., Evans, Brad S., Taylor, Joseph J.U., and Safari, Alex E. (2012) Donor-oyster derived heritability estimates and the effect of genotype × environment interaction on the production of pearl quality traits in the silver-lip pearl oyster, Pinctada maxima. Aquaculture, 338-341. pp. 66-71.

McGinty, E.L., Zenger, K.R., Jones, D.B., and Jerry, D.R. (2012) Transcriptome analysis of biomineralisation-related genes within the pearl sac: host and donor oyster contribution. Marine Genomics, 5. pp. 27-33.

Botté, E.S., Jerry, D.R., King, S. Codi, Smith-Keune, C., and Negri, A.P. (2012) Effects of chlorpyrifos on cholinesterase activity and stress markers in the tropical reef fish Acanthochromis polyacanthus. Marine Pollution Bulletin, 65 (4-9). pp. 384-393.

Edmunds, Richard C., Smith-Keune, Carolyn, Van Herwerden, Lynne, Fulton, Chris J., and Jerry, Dean R. (2012) Exposing local adaptation: synergistic stressors elicit population-specific lactate dehydrogenase-B (ldh-b) expression profiles in Australian barramundi, Lates calcarifer. Aquatic Sciences, 74 (1). pp. 171-178.

Todd, Erica V., Blair, David, Limpus, Colin J., Limpus, Duncan J., and Jerry, Dean R. (2012) High incidence of multiple paternity in an Australian snapping turtle (Elseya albagula). Australian Journal of Zoology, 60 (6). pp. 412-418.

Jones, D.B., Zenger, K.R., and Jerry, D.R. (2011) In silico whole-genome EST analysis reveals 2322 novel microsatellites for the silver-lipped pearl oyster, Pinctada maxima. Marine Genomics, 4 (4). pp. 287-290.

Shaddick, K., Burridge, C.P., Jerry, D.R., Schwartz, T.S., Truong, K., Gilligan, D.M., and Beheregaray, L.B. (2011) A hybrid zone and bidirectional introgression between two catadromous species: Australian bass Macquaria novemaculeata and estuary perch Macquaria colonorum. Journal of Fish Biology, 79 (5). pp. 1214-1235.

Hardy, Christopher M., Adams, Mark, Jerry, Dean R., Court, Leon N., Morgan, Matthew J., and Hartley, Diana M. (2011) DNA barcoding to support conservation: species identification, genetic structure and biogeography of fishes in the Murray-Darling River Basin, Australia. Marine and Freshwater Research, 62 (8). pp. 887-901.

De Santis, Christian, Wade, Nicholas M., Jerry, Dean R., Preston, Nigel P., Glencross, Brett D., and Sellars, Melony J. (2011) Growing backwards: an inverted role for the shrimp ortholog of vertebrate myostatin and GDF11. Journal of Experimental Biology, 214 (16). pp. 2671-2677.

Todd, Erica, Blair, David, Hamann, Mark, and Jerry, Dean (2011) Twenty-nine microsatellite markers for two Australian freshwater turtles, Elseya albagula and Emydura macquarii krefftii: development from 454-sequence data and utility in related taxa. Conservation Genetics Resources, 3 (3). pp. 449-456.

McGinty, Erin L., Zenger, Kyall R., Taylor, Joseph U.U., Evans, Brad S., and Jerry, Dean R. (2011) Diagnostic genetic markers unravel the interplay between host and donor oyster contribution in cultured pearl formation. Aquaculture, 316 (1-4). pp. 20-24.

De Santis, Christian, Smith-Keune, Carolyn, and Jerry, Dean R. (2011) Normalizing RT-qPCR data: are we getting the right answers? An appraisal of normalization approaches and internal reference genes from a case study in the Finfish Lates calcarifer. Marine Biotechnology, 13 (2). pp. 170-180.

De Santis, C., and Jerry, D.R. (2011) Differential tissue-regulation of myostatin genes in the teleost fish Lates calcarifer in response to fasting. Evidence for functional differentiation. Molecular and Cellular Endocrinology, 335 (2). 158-165 .

Shaddick, Kim, Gilligan, Dean M., Burridge, Christopher P., Jerry, Dean R., Truong, Kiet, and Beheregaray, Luciano B. (2011) Historic divergence with contemporary connectivity in a catadromous fish, the estuary perch (Macquaria colonorum). Canadian Journal of Fisheries and Aquatic Sciences, 68 (2). pp. 304-318.

Robinson, Nicholas Andrew, Schipp, Glenn, Bosmans, Jérôme, and Jerry, Dean Robert (2010) Modelling selective breeding in protandrous, batch-reared Asian sea bass (Lates calcarifer, Bloch) using walkback selection. Aquaculture Research, 41 (10). e643-e655.

Lind, Curtis E., Evans, Brad S., Taylor, Joseph J.U., and Jerry, Dean R. (2010) The consequences of differential family survival rates and equalizing maternal contributions on the effective population size (Ne) of cultured silver-lipped pearl oysters, Pinctada maxima. Aquaculture Research, 41 (8). pp. 1229-1242.

Kvingedal, Renate, Evans, Brad S., Lind, Curtis E., Taylor, Joseph J.U., Dupont-Nivet, Mathilde, and Jerry, Dean R. (2010) Population and family growth response to different rearing location, heritability estimates and genotype×environment interaction in the silver-lip pearl oyster (Pinctada maxima). Aquaculture, 304 (1-4). pp. 1-6.

Jones, D.B., Jerry, D.R., McCormick, M.I., and Bay, L.K. (2010) The population genetic structure of a common tropical damselfish on the Great Barrier Reef and eastern Papua New Guinea. Coral Reefs, 29 (2). pp. 455-467.

McGinty, Erin L., Evans, Brad S., Taylor, Joseph U.U., and Jerry, Dean R. (2010) Xenografts and pearl production in two pearl oyster species, P. maxima and P. margaritifera: effect on pearl quality and a key to understanding genetic contribution. Aquaculture, 302 (3-4). pp. 175-181.

Newton, James R., Smith-Keune, Carolyn, and Jerry, Dean R. (2010) Thermal tolerance varies in tropical and sub-tropical populations of barramundi (Lates calcarifer) consistent with local adaptation. Aquaculture, 308 (Supplement 1). S128-S132.

Guy, Jeffrey A., Jerry, Dean R., and Rowland, Stuart J. (2009) Heterosis in fingerlings from a diallel cross between two wild strains of silver perch (Bidyanus bidyanus). Aquaculture Research, 40 (11). pp. 1291-1300.

Smith-Keune, Carolyn, and Jerry, Dean R. (2009) High levels of intra-specific variation in the NG repeat region of the Pinctada maxima N66 organic matrix protein. Aquaculture Research, 40 (9). pp. 1054-1063.

Fauvelot, C., Smith-Keune, C., Jerry, D.R., Buston, P.M., and Planes, S. (2009) Isolation and characterization of 16 microsatellite loci in the humbug damselfish, Dascyllus aruanus (family Pomacentridae). Molecular Ecology Resources, 9 (2). pp. 651-653.

Lind, Curtis E., Evans, Brad S., Knauer, Jens, Taylor, Joseph J.U., and Jerry, Dean R. (2009) Decreased genetic diversity and a reduced effective population size in cultured silver-lipped pearl oysters (Pinctada maxima). Aquaculture, 286 (1-2). pp. 12-19.

Edmunds, Richard C., van Herwerden, Lynne, Smith-Keune, Carolyn, and Jerry, Dean R. (2009) Comparative characterization of a temperature responsive gene (lactate dehydrogenase-B, ldh-b) in two congeneric tropical fish, Lates calcarifer and Lates niloticus. International Journal of Biological Sciences, 5 (6). pp. 558-569.

Edmunds, Richard C., van Herwerden, Lynne, Smith-Keune, Carolyn, and Jerry, Dean R. (2009) Comparative characterization of a temperature responsive gene (lactatedehydrogenase-B, ldh-b) in two congeneric tropical fish, Lates calcarifer and Lates niloticus. International Journal of Biological Sciences, 5 (6). pp. 558-569.

Kvingedal, Renate, Evans, Bradley S., Taylor, Joseph J.U., Knauer, Jens, and Jerry, Dean R. (2008) Family by environment interactions in shell size of 43-day old silver-lip pearl oyster (Pinctada maxima), five families reared under different nursery conditions. Aquaculture, 279 (1-4). pp. 23-28.

Jerry, Dean R. (2008) Phylogeography of the freshwater catfish Tandanus tandanus (Plotosidae): a model species to understand evolution of the eastern Australian freshwater fish fauna. Marine and Freshwater Research, 59 (4). pp. 351-360.

McGinty, Erin L., Smith-Keune, Carolyn, and Jerry, Dean R. (2008) A high through-put protocol for quantifying nucleic acids in individual microcrustaceans using new generation RNA and DNA specific dyes. Journal of Shellfish Research, 27 (2). pp. 449-455.

Jones, David, Jerry, Dean, McCormick, Mark, and Bay, Line (2008) Development of nine microsatellite markers for Pomacentrus amboinensis. Molecular Ecology Resources, 8 (6). pp. 1332-1334.

Whalan, S., de Nys, R., Smith-Keune, C., Evans, B.S., Battershill, C., and Jerry, D.R. (2008) Low genetic variability within and among populations of the brooding sponge Rhopaloeides odorabile on the central Great Barrier Reef. Aquatic Biology, 3 (2). pp. 111-119.

de Santis, Christian, Evans, Brad S., Smith-Keune, Carolyn, and Jerry, Dean R. (2008) Molecular characterization, tissue expression and sequence variability of the barramundi (Lates calcarifer) myostatin gene. BMC Genomics, 9. pp. 82-96.

Wada, Katsuhiko T., and Jerry, Dean R. (2008) Population genetics and stock improvement. In: Southgate, Paul C., and Lucs, John S., (eds.) The Pearl Oyster. Elsevier, Oxford, UK, pp. 437-471.

Lind, Curtis E., Evans, Brad S., Taylor, Joseph J.U., and Jerry, Dean R. (2007) Population genetics of a marine bivalve, Pinctada maxima, throughout the Indo-Australian Archipelago shows differentiation and decreased diversity at range limits. Molecular Ecology, 16 (24). pp. 5193-5203.

De Santis, Christian, and Jerry, Dean R. (2007) Candidate growth genes in finfish - where should we be looking? Aquaculture, 272 (1-4). pp. 22-38.

Munkres, Katherine P., Bay, Line K., Jerry, Dean R., McCormick, Mark I., and van Herwerden, Lynne (2007) Development and characterization of microsatellite markers for parentage analyses of the coral reef damselfish (Pomacentrus amboinensis: Pomacentridae). Conservation Genetics, 8 (4). pp. 987-990.

Acosta-Salmón, Héctor , Jerry, Dean R., and Southgate, Paul C. (2007) Effects of cryoprotectant agents and freezing protocol on motility of black-lip pearl oyster (Pinctada margaritifera L.) spermatozoa. Cryobiology, 54 (1). pp. 13-18.

Frost, Lewis A., Evans, Brad S., and Jerry, Dean R. (2006) Loss of genetic diversity due to hatchery culture practices in barramundi (Lates calcarifer). Aquaculture, 261 (3). pp. 1056-1064.

Smith-Keune, C., Jerry, D.R., Evans, B.S., McCormick, M.I., Munday, P.L., and Jones, G.P. (2006) Development and characterization of eight new microsatellite markers for the haremic sandperch, Parapercis cylindrica (family Pinguipedidae). Molecular Ecology Resources, 6 (4). pp. 1036-1038.

Evans, B.S., Knauer, J., Taylor, J.U., and Jerry, D.R. (2006) Development and characterization of six new microsatellite markers for the silver-or gold-lipped pearl oyster, Pinctada maxima (Pteriidae). Molecular Ecology Notes, 6 (3). pp. 835-837.

Kvingedal, Renate, Owens, Leigh, and Jerry, Dean R. (2006) A new parasite that infects eggs of the mud crab, Scylla serrata, in Australia. Journal of Invertebrate Pathology, 93 (1). pp. 54-59.

Jerry, Dean R., Evans, Brad S., Kenway, Matt, and Wilson, Kate (2006) Development of a microsatellite DNA parentage marker suite for black tiger shrimp Penaeus monodon. Aquaculture, 255 (1-4). pp. 542-547.

Jerry, Dean R., Preston, Nigel P., Crocos, Peter J., Keys, Sandy, Meadows, Jennifer R.S., and Li, Yutao (2006) Application of DNA parentage analyses for determining relative growth rates of Penaeus japonicus families reared in commercial ponds. Aquaculture, 254 (1). pp. 171-181.

Maneeruttanarungroj, C., Pongsomboon, S., Wuthisuthimethavee, S., Klinbunga, S., Wilson, K.J., Swan, J., Li, Y., Whan, V., Chu, K.-H., Li, C.P., Tong, J., Glenn, K., Rothschild, M., Jerry, D., and Tassanakajon, A. (2006) Development of polymorphic expressed sequence tag-derived microsatellites for the extension of the genetic linkage map of the black tiger shrimp (Penaeus monodon). Animal Genetics, 37 (3). pp. 363-368.

Evans, B.S., and Jerry, D.R. (2006) Population genetic structure of giant clams, Tridacna gigas (Family Tridacnidae), on the Great Barrier Reef. Journal of Fisheries and Aquatic Science, 1 (3). pp. 235-243.

Jerry, Dean R., Purvis, Ian W., Piper, Laurie R., and Dennis, Chris A. (2005) Selection for faster growth in the freshwater crayfish Cherax destructor. Aquaculture, 247 (1-4). pp. 169-176.

Jerry, D.R. (2005) Electrophoretic evidence for the presence of Tandanus tandanus (Pisces: Plotosidae) immediately north and south of the Hunter River, New South Wales. Linnean Society of New South Wales. Proceedings, 126. pp. 121-124.

Jerry, D. R., Preston, N., Crocos, P. J., Keys, S., Meadows, J. R. S., and Li, Y. (2004) Parentage determination of Kuruma prawn shrimp Penaeus (Marsupenaeus) japonicus using microsatellite markers. Aquaculture, 235 (1-4). pp. 237-247.

Nguyen, T. T. T., Austin, C. M., Meewan, M. M., Schultz, M. B., and Jerry, D. R. (2004) Phylogeography of the freshwater crayfish Cherax destructor Clark (Parastacidae) in inland Australia: historical fragmentation and recent range expansion. Biological Journal of the Linnean Society, 83 (4). pp. 539-550.

Austin, C.M., Nguyen, T.T.T., Meewan, M. M., and Jerry, D.R. (2003) The taxonomy and phylogeny of the 'Cherax destructor' complex (Decapoda: Parastacidae) examined using mitochondrial 16S sequences. Australian Journal of Zoology, 51 (2). pp. 99-110.

Jerry, D. R., Elphinstone, M. S., and Baverstock, P. R. (2001) Phylogenetic relationships of Australian members of the family Percichthyidae inferred from mitochondrial 12S rRNA sequence data. Molecular Phylogenetics and Evolution, 18 (3). pp. 335-347.