Publications from 2018

Book Chapters

Heupel M, Kessel S, Matley J and Simpfendorfer C (2018) Acoustic telemetry. In: Shark Research: emerging technologies and applications for the field and laboratory. Marine Biology Series. CRC Press, Boca Raton, FL, USA, pp. 133-156

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

Chin A and Pecl G (2018) Citizen science in shark and ray research and conservation: strengths, opportunities, considerations and pitfalls. In: Shark Research: emerging technologies and applications for the field and laboratory. Marine Biology Series. CRC Press, Boca Raton, FL, USA, pp. 299-317


Ahasan M, Waltzek T, Huerlimann R and Ariel E (2018) Comparative analysis of gut bacterial communities of green turtles (Chelonia mydas) pre-hospitalization and post-rehabilitation by high-throughput sequencing of bacterial 16S rRNA gene. Microbiological Research, 207. pp. 91-99

Angell A, de Nys R, Mangott A and Vucko M (2018) The effects of concentration and supplementation time of natural and synthetic sources of astaxanthin on the colouration of the prawn Penaeus monodon. Algal Research, 35. pp. 577-585

Baje L, Smart J, Chin A, White W and Simpfendorfer C (2018) Age, growth and maturity of the Australian sharpnose shark Rhizoprionodon taylori from the Gulf of Papua. PLoS ONE, 13 (10)

Bao C, Yang Y, Zeng C, Huang H and Ye H (2018) Identifying neuropeptide GPCRs in the mud crab, Scylla paramamosain, by combinatorial bioinformatics analysis. General and Comparative Endocrinology, 269. pp. 122-130

Barrios-Garrido H, Palmar J, Wildermann N, Rojas-Cañizales D, Diedrich A and Hamann M(2018) Marine turtle presence in the traditional pharmacopoeia, cosmovision, and beliefs of Wayuú indigenous people. Chelonian Conservation and Biology, 17 (2). pp. 177-186

Benham C and Hussey K (2018) Mainstreaming deliberative principles in Environmental Impact Assessment: current practice and future prospects in the Great Barrier Reef, Australia.Environmental Science and Policy, 89. pp. 176-183

Bierwagen S, Heupel M, Chin A and Simpfendorfer C (2018) Trophodynamics as a tool for understanding coral reef ecosystems. Frontiers in Marine Science, 5.

Bierwagen S, Emslie M, Heupel M, Chin A and Simpfendorfer C (2018) Reef-scale variability in fish and coral assemblages on the central Great Barrier Reef. Marine Biology, 165.

Bonebrake T, Brown C, Bell J, Blanchard J, Chauvenet A, Champion C, Chen I, Clark T, Colwell R, Danielsen F, Dell A, Donelson J, Evengård B, Ferrier S, Frusher S, Garcia R, Griffis R, Hobday A, Jarzyna M, Lee E, Lenoir J, Linnetved H, Martin V, McCormack P, McDonald J, McDonald-Madden E, Mitchell N, Mustonen T, Pandolfi J, Pettorelli N, Possingham H, Pulsifer P, Reynolds M, Scheffers B, Sorte C, Strugnell J, Tuanmu M, Twiname S, Vergés A, Villanueva C, Wapstra E, Wernberg T and Pecl G (2018) Managing consequences of climate-driven species redistribution requires integration of ecology, conservation and social science. Biological Reviews, 93 (1). pp. 284-305

Campbell M, McLennan M, Courtney A and Simpfendorfer C (2018) Post-release survival of two elasmobranchs, the eastern shovelnose ray (Aptychotrema rostrata) and the common stingaree (Trygonoptera testacea), discarded from a prawn trawl fishery in southern Queensland, Australia.Marine and Freshwater Research, 69 (4). pp. 551-561

Caron A, Thomas C, Berry K, Motti C, Ariel E and Brodie J (2018) Validation of an optimised protocol for quantification of microplastics in heterogenous samples: a case study using green turtle chyme. MethodsX, 5. pp. 812-823

Chen Z, Wang G, Zeng C and Wu L (2018) Comparative study on the effects of two diatoms as diets on planktonic calanoid and benthic harpacticoid copepods. Journal of Experimental Zoology, Part A, 329 (3). pp. 140-148

Cole A, Praeger C, Mannering T, de Nys R and Magnusson M (2018) Hot and bright: thermal and light environments for the culture of Oedogonium intermedium and the geographical limits for large-scale cultivation in Australia. Algal Research, 34 (2018). pp. 209-216

Domingos J, Budd A, Banh Q, Goldsbury J, Zenger K and Jerry D (2018) Sex-specific dmrt1 and cyp19a1 methylation and alternative splicing in gonads of the protandrous hermaphrodite barramundi. PLoS ONE, 13 (9).

Egan J, Bloom D, Kuo C, Hammer M, Tongnunui P, Iglésias S, Sheaves M, Grudpan C and Simons A (2018) Phylogenetic analysis of trophic niche evolution reveals a latitudinal herbivory gradient in Clupeoidei (herrings, anchovies, and allies). Molecular Phylogenetics and Evolution, 124. pp. 151-161

Fingerhut L, Strugnell J, Faou P, Labiaga À, Zhang J and Cooke I (2018) Shotgun proteomics analysis of saliva and salivary gland tissue from the common octopus Octopus vulgaris. Journal of Proteome Research, 17 (11). pp. 3866-3876

Genodepa J, Zeng C and Southgate P (2018) Changes in digestive enzyme activities and nutrient utilization during embryonic development and starvation of newly hatched larvae of the mud crab, Scylla serrata. Aquaculture, 493. pp. 137-143

Gillies C, McLeod I, Alleway H, Cook P, Crawford C, Creighton C, Diggles B, Ford J, Hamer P, Heller-Wagner G, Lebrault E, Le Port A, Russell K, Sheaves M and Warnock B (2018) Australian shellfish ecosystems: past distribution, current status and future direction. PLoS ONE, 13 (2).

Grant M, Smart J, White W, Chin A, Baje L and Simpfendorfer C (2018) Life history characteristics of the silky shark Carcharhinus falciformis from the central west Pacific. Marine and Freshwater Research, 69 (4). pp. 562-573

Goetze J, Langlois T, McCarter J, Simpfendorfer C, Hughes A, Tingo Leve J and Jupiter S (2018) Drivers of reef shark abundance and biomass in the Solomon Islands. PLoS ONE, 13 (7).

Gutt J, Isla E, Bertler A, Bodeker G, Bracegirdle T, Cavanagh R, Comiso J, Convey P, Cummings V, De Conto R, De Master D, di Prisco G, d'Ovidio F, Griffiths H, Khan A, Lopez-Martinez J, Murray A, Nielsen U, Ott S, Post A, Ropert-Coudert Y, Saucede T, Scherer R, Schiaparelli S, Scholss I, Smith C, Stefels J, Steven C, Strugnell J, Trimborn S, Verde C, Verleyen E, Wall D, Wilson N and Xavier J (2018) Cross-disciplinarity in the advance of Antarctic ecosystem research. Marine Genomics, 37.

Guppy J, Jones D, Jerry D, Wade N, Raadsma H, Huerlimann R and Zenger K (2018) The state of "omics" research for farmed penaeids: advances in research and impediments to industry utilization. Frontiers in Genetics, 9.

Hall R, Robson S and Ariel E (2018) Colour vision of green turtle (Chelonia mydas) hatchlings: do they still prefer blue under water? PeerJ, 6.

Heupel M, Lédée E and Simpfendorfer C (2018) Telemetry reveals spatial separation of co-occurring reef sharks. Marine Ecology - Progress Series, 589. pp. 179-192

Huerlimann R, Wade N, Gordon L, Montenegro J, Goodall J, McWilliam S, Tinning M, Siemering K, Giardina E, Donovan D, Sellars M, Cowley J, Condon K, Coman G, Khatkar M, Raadsma H, Maes G, Zenger K and Jerry D (2018) De novo assembly, characterization, functional annotation and expression patterns of the black tiger shrimp (Penaeus monodon) transcriptome. Scientific Reports, 8.

Infante Villamil S, Huerlimann R, Morianos C, Sarnyai Z and Maes G (2018) Adverse effect of early life high-fat/high-carbohydrate ('Western') diet on bacterial community in the distal bowel of mice. Nutrition Research, 50. pp. 25-36

Jabado R, Kyne P, Pollom R, Ebert D, Simpfendorfer C, Ralph G, Al Dhaheri S, Akhilesh K, Ali K, Ali M, Al Mamari T, Bineesh K, El Hassan I, Fernando D, Grandcourt E, Khan M, Moore A, Owfi F, Robinson D, Romanov E, Soares A, Spaet J, Tesfamichael D, Valinassab T and Dulvy N (2018) Troubled waters: threats and extinction risk of the sharks, rays and chimaeras of the Arabian Sea and adjacent waters. Fish and Fisheries, 19 (6). pp. 1043-1062

Jones C (2018) Progress and obstacles in establishing rock lobster aquaculture in Indonesia. Bulletin of Marine Science, 94 (3). pp. 1223-1233

Jones K, Jensen M, Burgess G, Leonhardt J, van Herwerden L, Hazel J, Hamann M, Bell I and Ariel E (2018) Closing the gap: mixed stock analysis of three foraging populations of green turtles (Chelonia mydas) on the Great Barrier Reef. PeerJ, 6.

Kelly E, Martin P, Gibson-Kueh S, Morgan D, Ebner B, Donaldson J, Buller N, Crook D, Brooks S, Davis A, Hammer M, Foyle L, Hair S and Lymbery A (2018) First detection of Edwardsiella ictaluri (Proteobacteria: Enterobacteriaceae) in wild Australian catfish. Journal of Fish Diseases, 41 (2). pp. 199-208

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

Lane D, Truong E, Larizza F, Chiew P, de Nys R and van Eyk P (2018) Effect of hydrothermal carbonization on the combustion and gasification behavior of agricultural residues and macroalgae: devolatilization characteristics and char reactivity. Energy & Fuels, 32 (4). pp. 4149-4159

Li X, Norman H, Kinley R, Laurence M, Wilmot M, Bender H, de Nys R and Tomkins N (2018) Asparagopsis taxiformis decreases enteric methane production from sheep. Animal Production Science, 58 (4). pp. 681-688

Litvin S, Weinstein M, Sheaves M and Nagelkerken I (2018) What makes nearshore habitats nurseries for nekton? An emerging view of the nursery role hypothesis. Estuaries and Coasts, 41 (6). pp. 1539-1550

Long X, Wu X, Zhao L, Ye H, Cheng Y and Zeng C (2018) Physiological responses and ovarian development of female Chinese mitten crab Eriocheir sinensis subjected to different salinity conditions. Frontiers in Physiology, 8.

Machado L, Tomkins N, Magnusson M, Midgley D, de Nys R and Rosewarne C (2018) In vitro response of rumen microbiota to the antimethanogenic red acroalga Asparagopsis taxiformis.Microbial Ecology, 75 (3). pp. 811-818

Maclaine A, Mashkour N, Scott J and Ariel E (2018) Susceptibility of eastern water dragons Intellagama lesueurii lesueurii to Bohle iridovirus. Diseases of Aquatic Organisms, 127. pp. 97-105

MacKeracher T, Diedrich A and Simpfendorfer C (2018) Sharks, rays and marine protected areas: a critical evaluation of current perspectives. Fish and Fisheries, 20 (2). pp. 255-267

MacKeracher T, Diedrich A, Gurney G and Marshall N (2018) Who trusts who in the Great Barrier Reef? Exploring trust and communication in natural resource management. Environmental Science & Policy, 88. pp. 24-31

March D, Vinette-Herrin K, Peters A, Ariel E, Blyde D, Hayward D, Christidis L and Kelaher B (2018) Hematologic and biochemical characteristics of stranded green sea turtles. Journal of Veterinary Diagnostic Investigation, 30 (3). pp. 423-429

Martins A, Heupel M, Chin A and Simpfendorfer C (2018) Batoid nurseries: definition, use and importance. Marine Ecology - Progress Series, 595. pp. 253-267

Martins A, Feitosa L, Lessa R, Almeida Z, Heupel M, Silva W, Tchaicka L and Silva Nunes J (2018) Analysis of the supply chain and conservation status of sharks (Elasmobranchii: Superorder Selachimorpha) based on fisher knowledge. PLoS One, 13 (3).

Mashkour N, Maclaine A, Burgess G and Ariel E (2018) Discovery of an Australian Chelonia mydas papillomavirus via green turtle primary cell culture and qPCR. Journal of Virological Methods, 258. pp. 13-23

Mendez D, Foyle L, Cobbold R and Speare R (2018) Survey of rabies vaccination status of Queensland veterinarians and veterinary students. Australian Veterinary Journal, 96 (5). pp. 155-160

Morse P, Huffard C, Meekan M, McCormick M and Zenger K (2018) Mating behaviour and postcopulatory fertilization patterns in the southern blue-ringed octopus, Hapalochlaena maculosa. Animal Behaviour, 136. pp. 41-51

Morse P, Kjeldsen S, Meekan M, McCormick M, Finn J, Huffard C and Zenger K (2018) Genome-wide comparisons reveal a clinal species pattern within a holobenthic octopod - the Australian Southern blue-ringed octopus, Hapalochlaena maculosa (Cephalopoda: Octopodidae). Ecology and Evolution, 8 (4). pp. 2253-2267

Nugraha R, Kamath S, Johnston E, Zenger K, Rolland J, O’Hehir R and Lopata A (2018) Rapid and comprehensive discovery of unreported shellfish allergens using large-scale transcriptomic and proteomic resources. Journal of Allergy and Clinical Immunology, 141 (4). pp. 1501-1504

Noordin N, Zeng C and Southgate P (2018) Progress in diet development for blue swimmer crab, Portunus pelagicus, juveniles: effect of dietary phospholipid on survival, development, growth and resistance to osmotic shock. Aquaculture Nutrition, 24 (6). pp. 1834-1844

Praeger C and de Nys R (2018) A new dimension in algal cultivation – 3D printed structures with a range of buoyancies. Algal Research, 36. pp. 209-216

Praeger C and de Nys R (2018) Improvement of the seeding of filamentous Ulva tepida on free-floating surfaces. Algal Research, 30. pp. 73-78

Reid A and Strugnell J (2018) A new pygmy squid, Idiosepius hallami n. sp (Cephalopoda: Idiosepiidae) from eastern Australia and elevation of the southern endemic 'notoides' clade to a new genus, Xipholeptos n. gen. Zootaxa, 4369 (4). pp. 451-486

Roberts D, Shiels L, Tickle J, de Nys R and Paul N (2018) Bioremediation of aluminium from the waste water of a conventional water treatment plant using the freshwater macroalga Oedogonium. Water, 10 (5)

Rolland J, Varese N, Abramovitch J, Anania J, Nugraha R, Kamath S, Hazard A, Lopata A and O’Hehir R (2018) Effect of heat processing on IgE reactivity and cross-reactivity of Tropomyosin and other allergens of Asia-Pacific mollusc species: identification of novel Sydney rock oyster Tropomyosin Sac g 1. Molecular Nutrition & Food Research, 62 (14).

Ruethers T, Taki A, Johnston E, Nugraha R, Le T, Kalic T, McLean T, Kamath S and Lopata A(2018) Seafood allergy: a comprehensive review of fish and shellfish allergens. Molecular Immunology, 100. pp. 28-57

Ruethers T, Raith M, Sharpe M, Koeberl M, Stephen J, Nugraha R, Le T, Quirce S, Nguyen H, Kamath S, Mehr S, Campbell D, Bridges C, Taki A, Swoboda I and Lopata A (2018) Characterization of Ras k 1 a novel major allergen in Indian mackerel and identification of parvalbumin as the major fish allergen in 33 Asia-Pacific fish species. Clinical & Experimental Allergy, 48 (4). pp. 452-463

Sakuna K, Elliman J and Owens L (2018) Therapeutic trials against pre-existing Chequa iflavirus in redclaw crayfish (Cherax quadricarinatus). Aquaculture, 492. pp. 9-14

Sakuna K, Elliman J, Tzamouzaki A and Owens L (2018) A novel virus (order Bunyavirales) from stressed redclaw crayfish (Cherax quadricarinatus) from farms in northern Australia. Virus Research, 250. pp. 7-12

Sakuna K, Elliman J and Owens L (2018) Comparison of molecular detection PCR methods for chequa iflavirus in freshwater crayfish, Cherax quadricarinatus. Journal of Virological Methods, 251. pp. 139-144

Sandanam A, Diedrich A, Gurney G and Richardson T (2018) Perceptions of cyclone preparedness: assessing the role of individual adaptive capacity and social capital in the Wet Tropics, Australia. Sustainability, 10 (4).

Sheaves M, Johnston R, Miller K and Nelson P (2018) Impact of oil palm development on the integrity of riparian vegetation of a tropical coastal landscape. Agriculture, Ecosystems and Environment, 262. pp. 1-10

Sherman C, Chin A, Heupel M and Simpfendorfer C (2018) Are we underestimating elasmobranch abundances on baited remote underwater video systems (BRUVS) using traditional metrics? Journal of Experimental Marine Biology and Ecology, 503. pp. 80-85

Stilwell N, Whittington R, Hick P, Becker J, Ariel E, van Beurden S, Vendramin N, Olesen N and Waltzek T (2018) Partial validation of a TaqMan real-time quantitative PCR for the detection of ranaviruses. Diseases of Aquatic Organisms, 128 (2). pp. 105-116

Strugnell J, Pedro J and Wilson N (2018) Dating Antarctic ice sheet collapse: proposing a molecular genetic approach. Quaternary Science Reviews, 179. pp. 153-157

Syafrizal S, Jones C, Permana I and Utomo N (2018) Effect of feeding frequency on survival and growth of juvenile spiny lobster Panulirus versicolor in Indonesia. Aquaculture, Aquarium, Conservation and Legislation, 11 (5). pp. 1427-1434

Villacorta-Rath C, Souza C, Murphy N, Green B, Gardner C and Strugnell J (2018) Temporal genetic patterns of diversity and structure evidence chaotic genetic patchiness in a spiny lobster.Molecular Ecology, 27 (1). pp. 54-65

Waltham N and Sheaves M (2018) Eco-engineering rock pools to a seawall in a tropical estuary: microhabitat features and fine sediment accumulation. Ecological Engineering, 120. pp. 631-636

Wirth W, Schwarzkopf L, Skerratt L and Ariel E (2018) Ranaviruses and reptiles. PeerJ, 6.

Woodings L, Murphy N, Doyle S, Hall N, Robinson A, Liggins G, Green B, Cooke I, Bell J and Strugnell J (2018) Outlier SNPs detect weak regional structure against a background of genetic homogeneity in the Eastern Rock Lobster, Sagmariasus verreauxi. Marine Biology, 165 (12).

Xu X, Wang G, Zeng C and Li S (2018) Parentage determination of the mud crab Scylla paramamosain using microsatellite markers. Aquaculture Research, 49 (1). pp. 217-221

Zeh D, Heupel M, Hamann M, Jones R, Limpus C and Marsh H (2018) Evidence of behavioural thermoregulation by dugongs at the high latitude limit to their range in eastern Australia. Journal of Experimental Marine Biology and Ecology, 508. pp. 27-34

Zeng C, Shao L, Ricketts A and Moorhead J (2018) The importance of copepods as live feed for larval rearing of the green mandarin fish Synchiropus splendidus. Aquaculture, 491. pp. 65-71

Zhang R, Yuen A, Magnusson M, Wright J, de Nys R, Masters A and Maschmeyer T (2018) A comparative assessment of the activity and structure of phlorotannins from the brown seaweed Carpophyllum flexuosum. Algal Research, 29. pp. 130-141

Zhu Y, Van Eyk P, Boman C, Brostrom M, Kirtania K, Piotrowska P, Bostrom D, de Nys R, Bhattacharya S, Gentili F and Ashman P (2018) Preliminary understanding on the ash behavior of algae during cogasification in an entrained flow reactor. Fuel Processing Technology, 175. pp. 26-34