Dr. Dave Jones is a researcher specializing in applying genomics within advanced breeding programs for aquaculture species. 

Dave was awarded his PhD in aquaculture genomics from James Cook University in 2014 which focused on building the genomic tools and background knowledge necessary for the establishment of advanced genetic breeding programs for the silver-lipped pearl oyster in Australia and Indonesia. Alongside his PhD, Dave also applied his knowledge and skills to an independent selective breeding program for the white-legged shrimp in Indonesia. Since then, he has worked at the Sydney Institute of Marine Science and Macquarie University, Sydney, investigating the cause of a disease in the silver-lipped pearl oyster. Additionally, he has worked at Ifremer, Pacific Center in French Polynesia, developing the resources necessary for genetic breeding programs in the black-lipped pearl oyster. To date, he has published 41+ scientific articles related to genetics and aquaculture.

Dave’s primary expertise involves the application of genetic and genomic tools to address research questions with a strong applied aquaculture focus. He has designed and validated numerous commercial single nucleotide polymorphism (SNP) panels across multiple leading platforms for a diverse array of species. Their development and application has allowed the creating of genomic linkage maps, and has enabled links to be drawn between an individual's genotype and phenotypic variance of ecological and commercial importance.

Dave has played a substantial role in developing co-funded ARC and CRC-P genomic research projects at JCU with colleagues within the Centre for Sustainable Tropical Fisheries and Aquaculture (CSTFA). As a result, he has ongoing collaborations with researchers from the University of Sydney; CSIRO at Bribie Island; AGRF in Melbourne; IFREMER in French Polynesia and Montpellier; and Jeju National University, South Korea. In addition, he also has ongoing research projects with aquaculture commercial partners in Broome, Western Australia, and Melbourne, Victoria.

Dave has seen one PhD candidate through to completion and has two current PhD students. He is actively involved as a mentor for many past and present HDR students within CSTFA and the Molecular Ecology and Evolution Laboratory (MEEL). Between 2009 and 2015, Dave presented guest lectures and tutored within numerous first year to fourth year genetics and aquaculture undergraduate subjects at JCU.

Dave has been an integral contributor to several research projects at JCU including:

Unleashing the tiger - advanced breeding to transform prawn aquaculture, ARC Industrial Transformation Research Program (partners Seafarms, Australian Genome Research Facility, USyd, CSIRO)

Pearls of wisdom - breeding for increased tolerance to juvenile pearl oyster mortality syndrome, CRC-P for Northern Australia (industry partners Ellies Pearls, Cygnet Bay Pearls, Clipper Pearls)

Rapid iteration selective breeding: Australia's fish to feed the world, CRC-P (partner Mainstream Aquaculture)

Experience

• 2019 to 2021 - Research Fellow, James Cook University (Townsville, Australia)
• 2017 to 2019 - Research Fellow, Ifremer Centre du Pacifique (French Polynesia)
• 2010 to 2018 - Invited Guest Lecturer (CSE AQ3015, BZ2420, AQ3004, AQ5004), James Cook University (Townsville, Australia)
• 2015 to 2017 - Research Fellow, James Cook University (Townsville, Australia)
• 2010 to 2017 - Subject Tutor (CSE BZ2420, AQ3004, AQ5004), James Cook University (Townsville, Australia)
• 2014 to 2015 - Research Fellow, Sydney Institute of Marine Science and Macquarie University (Sydney, Australia)
• 2010 to 2014 - Ph.D. Aquaculture Genomics, James Cook University (Townsville, Australia)
• 2010 to 2013 - International Student Tutor, James Cook University (Townsville, Australia)
• 2009 to 2013 - Genomics Research Worker, James Cook University (Townsville, Australia)
• 2010 to 2012 - Laboratory Research Worker, James Cook University (Townsville, Australia)
• 2009 to 2010 - Field Research Worker, James Cook University (Townsville, Australia)
• 2008 to 2009 - Bachelor of Science (honours), James Cook University (Townsville, Australia)
• 2005 to 2007 - Bachelor of Science, James Cook University (Townsville, Australia)

Research Disciplines

• Fisheries sciences (3005)
• Genetics (3105)
• Computer vision and multimedia computation (4603)

Socio-Economic Objectives

• Fisheries - aquaculture (1002)

These are the most recent publications associated with this author. To see a detailed profile of all publications stored at JCU, visit ResearchOnline@JCU. Hover over Altmetrics badges to see social impact.

Journal Articles

• Saleh A, Jones D, Jerry D and Azghadi M (in press) MFLD-net: a lightweight deep learning network for fish morphometry using landmark detection. Aquatic Ecology,
• Vu N, Jerry D, Edmunds R, Jones D and Zenger K (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).
• Jerry D, Jones D, Lillehammer M, Massault C, Loughnan S, Cate H, Harrison P, Strugnell J, Zenger K and Robinson N (2022) Predicted strong genetic gains from the application of genomic selection to improve growth related traits in barramundi (Lates calcarifer). Aquaculture, 549.
• Liyanage D, Lee S, Yang H, Lim C, Omeka W, Sandamalika W, Udayantha H, Kim G, Ganeshalingam S, Jeong T, Oh S, Won S, Koh H, Kim M, Jones D, Massault C, Jerry D and Lee J (2022) Genome-wide association study of VHSV-resistance trait in Paralichthys olivaceus. Fish and Shellfish Immunology, 124. pp. 391-400
• Massault C, Jeffrey C, Jones D, Barnard R, Strugnell J, Zenger K and Jerry D (2022) Non-invasive DNA collection for parentage analysis for bivalves: A case study from the silver-lipped pearl oyster (Pinctada maxima). Aquaculture, 552.
• Omeka W, Liyanage D, Lee S, Lim C, Yang H, Sandamalika W, Udayantha H, Kim G, Ganeshalingam S, Jeong T, Oh S, Won S, Koh H, Kim M, Jones D, Massault C, Jerry D and Lee J (2022) Genome-wide association study (GWAS) of growth traits in olive flounder (Paralichthys olivaceus). Aquaculture, 555.
• Whitelaw B, Jones D, Guppy J, Morse P, Strugnell J, Cooke I and Zenger K (2022) High-Density Genetic Linkage Map of the Southern Blue-ringed Octopus (Octopodidae: Hapalochlaena maculosa). Diversity, 14 (12).
• Arbon P, Silva C, Jones D, Jaccoud D, Gervis M, Jerry D and Strugnell J (2021) Development and validation of a SNP-based genotyping tool for pedigree establishment in Australian greenlip abalone Haliotis laevigata Donovan, 1808. Aquaculture Reports, 20.
• Massault C, Jones D, Zenger K, Strugnell J, Barnard R and Jerry D (2021) A SNP parentage assignment panel for the silver lipped pearl oyster (Pinctada maxima). Aquaculture Reports, 20.
• Guppy J, Jones D, Kjeldsen S, Le Port A, Khatkar M, Wade N, Sellars M, Raadsma H, Jerry D and Zenger K (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.
• Jones D, Nguyen H, Khatkar M, Simma D, Jerry D, Raadsma H, van der Steen H, Prochaska J and Zenger K (2020) The identification of a major sex QTL in the white-leg shrimp, Litopenaeus vannamei. Aquaculture, 529.
• Nayfa M, Jones D, Benzie J, Jerry D and Zenger K (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.

More

ResearchOnline@JCU stores 30+ research outputs authored by Dr Dave Jones from 2008 onwards.

Current and recent Research Funding to JCU is shown by funding source and project.

Advisory Accreditation: I can be on your Advisory Panel as a Primary or Secondary Advisor.

These Higher Degree Research projects are either current or by students who have completed their studies within the past 5 years at JCU. Linked titles show theses available within ResearchOnline@JCU.

Current

• Building the foundations of a selective breeding program in giant grouper Epinephelus lanceloatus (PhD , Secondary Advisor)
• Development of Dense Genomic Resources for the Black Tiger Prawn to Unravel the Genetic Architecture of Complex Traits in the Black Tiger Prawn (PhD , Secondary Advisor)
• Optimising selective breeding techniques for direct implementation into Black Tiger Prawn and Silver Lipped Oyster commercial breeding programs (PhD , Secondary Advisor)
• Striking Gold - Determining the genetic Drivers of Gold Coloration in Barramundi (PhD , Secondary Advisor)
• Understanding Black Soldier Fly (Hermetia illucens) genetic contributions and mating behaviour across wild and commercial production systems for improved breeding applications (PhD , Secondary Advisor)

Completed

• Domestication in aquaculture fishes - elucidating the genetic consequences in Nile Tilapia (Oreochromis niloticus) (2020, PhD , Secondary Advisor)

These are the most recent metadata records associated with this researcher. To see a detailed description of all dataset records, visit Research Data Australia.

• Jones, D. (2020) Family and population genotypic data from the commercial Infinium ShrimpLD-24 BeadChip. James Cook University
• Nayfa, M. (2020) SNP DArT Data- Generations 9-11 of the Abbassa Strain of Nile tilapia, Egypt. James Cook University
• Nayfa, M. (2020) In Silico DArt Data- Generations 9-11 of the Abbassa Strain of Nile Tilapia, Egypt. James Cook University

The map shows research collaborations by institution from the past 7 years.
Note: Map points are indicative of the countries or states that institutions are associated with.