Uthicke, S., Lamare, M. & Doyle, J.R. (2018) eDNA detection of corallivorous seastar (Acanthaster cf. solaris) outbreaks on the Great Barrier Reef using digital droplet PCR. Coral Reefs. doi: 10.1007/s00338-018-1734-6
Doyle JR, McKinnon AD, Uthicke S (2017) Quantifying larvae of the coralivorous seastar Acanthaster cf. solaris on the Great Barrier Reef using qPCR Mar Biol 164:176 doi:10.1007/s00227-017-3206-x
Lønborg C, Doyle J, Furnas M, Menendez P, Benthuysen JA, Carreira C (2017) Seasonal organic matter dynamics in the Great Barrier Reef lagoon: contribution of carbohydrates and proteins. Continental Shelf Research 138: 95-105Bay, L. K, Doyle, J., Logan
Pineda MC, Strehlow B, Duckworth A, Doyle J, Jones R, Webster NS (2016) Effects of light attenuation on the sponge holobiont- implications for dredging management Scientific Reports 6 doi:ARTN 39038 doi:10.1038/srep39038
Bay LK, Doyle J, Logan M, Berkelmans R (2016) Recovery from bleaching is mediated by threshold densities of background thermo-tolerant symbiont types in a reef-building coral Royal Society Open Science 3 doi:10.1098/rsos.160322
Strahl J, Francis DS, Doyle J, Humphrey C, Fabricius KE (2016) Biochemical responses to ocean acidification contrast between tropical corals with high and low abundances at volcanic carbon dioxide seeps ICES J Mar Sci 73:897-909 doi:10.1093/icesjms/fsv194
Uthicke, S., Doyle, J., Duggan, S., Yasuda, N. and McKinnon, A. D. (2015). "Outbreak of coral-eating Crown-of-Thorns creates continuous cloud of larvae over 320¿km of the Great Barrier Reef." Scientific Reports 5: 16885.
McKinnon AD, Doyle J, Duggan S, Logan M, Lønborg C, Brinkman R (2015) Zooplankton Growth, Respiration and Grazing on the Australian Margins of the Tropical Indian and Pacific Oceans. PLoS ONE 10(10): e0140012. doi:10.1371/journal. pone.0140012
Berkelmans R, Doyle J, van Oppen MJH, Asbridge EF, Brown AR (2014) Efficacy of long-term coral tissue storage in ethanol for genotyping studies. Coral Reefs 33:89-96. doi: DOI 10.1007/s00338-013-1106-1
Evans-Illidge EA, Logan M, Doyle J, Fromont J, Battershill CN, Ericson G, Wolff CW, Muirhead A, Kearns P, Abdo D, Kininmonth S, Llewellyn L (2013) Phylogeny Drives Large Scale Patterns in Australian Marine Bioactivity and Provides a New Chemical Ecology Rationale for Future Biodiscovery. PLoS ONE 8. doi: ARTN e73800. DOI 10.1371/journal.pone.0073800