Ross, Pauline M., Scanes, Elliot, Byrne, Maria, Ainsworth, Tracy, Donelson, Jennifer M., Foo, Shawna A., Hutchings, Pat, Thiyagarajan, Vengatesen, and Parker, Laura M. (2023) Surviving the Anthropocene: the resilience of marine animals to climate change. In: Hawkins, S.J., Todd, P.A., Russell, B.D., Lemasson, A.J., Allcock, A.L., Byrne, M., Firth, L.B., Lucas, C.H., Marzinelli, E.M., Mumby, P.J., Sharples, J., Smith, I.P., and Swearer, S.E., (eds.) Oceanography and Marine Biology: An Annual Review. Taylor & Francis, pp. 35-80.

Leggat, William, Heron, Scott F., Fordyce, Alexander, Suggett, David J., and Ainsworth, Tracy D. (2022) Experiment Degree Heating Week (eDHW) as a novel metric to reconcile and validate past and future global coral bleaching studies. Journal of Environmental Management, 301. 113919.

Kavazos, Christopher R.J., Ricci, Francesco, Leggat, William, Casey, Jordan, Choat, J. Howard, and Ainsworth, Tracy D. (2022) Intestinal Microbiome Richness of Coral Reef Damselfishes (Actinopterygii: Pomacentridae). Integrative Organismal Biology, 4 (1). obac026.

Bergstrom, Dana M., Wienecke, Barbara C., van der Hoff, John, Hughes, Lesley, Lindenmayer, David, Ainsworth, Tracy, Baker, Christopher M., Bland, Lucie, Bowman, David, Brooks, Shaun T., Canadell, Josep G., Constable, Andrew J., Dafforn, Katherine A., Depledge, Michael H., Dickson, Catherine R., Duke, Norman, Helmstedt, Kate J., Holz, Andres, Johnson, Craig, Mcgeoch, Melodie, Melbourne-thomas, Jessica, Morgain, Rachel, Nicholson, Emily, Prober, Suzanne, Raymond, Ben, Ritchie, Euan, Robinson, Sharon, Ruthrof, Katinka X., Setterfield, Samantha A., Sgro, Carla M., Stark, Jonathan S., Travers, Toby, Trebilco, Rowan, Ward, Delphi F.L., Wardle, Glenda, Williams, Kristen, Zylstra, Phillip J., and Shaw, Justine D. (2021) Ecosystem collapse from the tropics to the Antarctic: an assessment and response framework. Global Change Biology, 27. pp. 1692-1703.

Bergstrom, Dana, Wienecke, Barbara C., van den Hoff, John, Hughes, Lesley, Lindenmayer, David B., Ainsworth, Tracy D., Baker, Christopher M., Bland, Lucie, Bowman, David M.J.S., Brooks, Shaun T., Canadell, Josep G., Constable, Andrew J., Dafforn, Katherine, Depledge, Michael H., Dickson, Catherine, Duke, Norman C., Helmstedt, Kate J., Holz, Andres, Johnson, Craig R., McGeoch, Melodie A., Melbourne-thomas, Jessica, Morgain, Rachel, Nicholson, Emily, Prober, Suzanne M., Raymond, Ben, Ritchie, Euan G., Robinson, Sharon A., Ruthrof, Katinka X., Setterfield, Samantha A., Sgro, Carla M., Stark, Jonathan S., Travers, Toby, Trebilco, Rowan, Ward, Delphi F.L., Wardle, Glenda M., Williams, Kristen J., Zylstra, Phillip J., and Shaw, Justine D. (2021) Combating ecosystem collapse from the tropics to the Antarctic. Global Change Biology, 27. pp. 1692-1703.

Page, C.E., Leggat, W., Heron, S.F., Fordyce, A.J., and Ainsworth, T.D. (2021) High flow conditions mediate damaging impacts of sub-lethal thermal stress on corals' endosymbiotic algae. Conservation Physiology, 9 (1). coab046.

Ainsworth, Tracy D., Leggat, William, Silliman, Brian R., Lantz, Coulson A., Bergman, Jessica L., Fordyce, Alexander J., Page, Charlotte E., Renzi, Juliana J., Morton, Joseph, Eakin, C. Mark, and Heron, Scott F. (2021) Rebuilding relationships on coral reefs: Coral bleaching knowledge-sharing to aid adaptation planning for reef users: Bleaching emergence on reefs demonstrates the need to consider reef scale and accessibility when preparing for, and responding to, coral bleaching. BioEssays, 43 (9). 2100048.

Greene, Austin, Leggat, William, Donahue, Megan J., Raymundo, Aurie J., Caldwell, Jamie M., Moriarty, Tess, Heron, Scott F., and Ainsworth, Tracy D. (2020) Complementary sampling methods for coral histology, metabolomics and microbiome. Methods in Ecology and Evolution, 11 (9). pp. 1012-1020.

Gierz, Sarah, Ainsworth, Tracy D., and Leggat, William (2020) Diverse symbiont bleaching responses are evident from 2-degree heating week bleaching conditions as thermal stress intensifies in coral. Marine and Freshwater Research, 71 (9). pp. 1149-1160.

Wada, Naohisa, Ishimochi, Mizuki, Matsui, Taeko, Pollock, F. Joseph, Tang, Sen-Lin, Ainsworth, Tracy D., Willis, Bette L., Mano, Nobuhiro, and Bourne, David G. (2019) Characterization of coral-associated microbial aggregates (CAMAs) within tissues of the coral Acropora hyacinthus. Scientific Reports, 9. 14662.

Fordyce, Alexander J., Ainsworth, Tracy D., Heron, Scott F., and Leggat, William (2019) Marine heatwave hotspots in coral reef environments: physical drivers, ecophysiological outcomes and impact upon structural complexity. Frontiers in Marine Science, 6. 498.

Leggat, William P., Camp, Emma F., Suggett, David J., Heron, Scott F., Fordyce, Alexander J., Gardner, Stephanie, Deakin, Lachlan, Turner, Michael, Beeching, Levi J., Kuzhiumparambil, Unnikrishnan, Eakin, C. Mark, and Ainsworth, Tracy D. (2019) Rapid coral decay is associated with marine heatwave mortality events on reefs. Current Biology, 29 (16). pp. 2723-2730.

Jaspers, Cornelia, Fraune, Sebastian, Arnold, A. Elizabeth, Miller, David J., Bosch, Thomas C.G., Voolstra, Christian R., Adamska, Maja, Ainsworth, Tracy, Ball, Eldon, Boote, Chlöe, Bourne, David, Butterfield, Nicholas J., Chan, Cheong Xin, Cooke, Ira, Cowman, Peter F., Darling, Aaron, Davy, Simon K., Mohamed, Amin, Fabricius, Katharina, Valero Fortunato, Sofia V., Hernandez Agreda, Alejandra, Hoogenboom, Mia, Moya, Aurelie, Pita, Lucia, Ragan, Mark A., Robbins, Steven J., Andrade Rodriguez, Natalia R., Sakamaki, Kazuhiro, Schoepf, Verena, Seemann, Thorsten, Shinzato, Chuya, Stolarski, Jarosław, Strugnell, Jan, Takahashi, Shunichi, Tang, Sen-Lin, Webster, Nicole N, Whitelaw, Brooke, and Ying, Hua (2019) Resolving structure and function of metaorganisms through a holistic framework combining reductionist and integrative approaches. Zoology, 133. pp. 81-87.

Page, Charlotte E., Leggat, William, Heron, Scott F., Choukroun, Severine M., Lloyd, Jon, and Ainsworth, Tracy D. (2019) Seeking resistance in coral reef ecosystems: the interplay of biophysical factors and bleaching resistance under a changing climate: the interplay of a reef's biophysical factors can mitigate the coral bleaching response. BioEssays, 41 (7). 1800226.

Trevathan-Tackett, Stacey M., Sherman, Craig D.H., Huggett, Megan J., Campbell, Alexandra H., Laverock, Bonnie, Hurtado-McCormick, Valentina, Seymour, Justin R., Firl, Alana, Messer, Lauren F., Ainsworth, Tracy D., Negandhi, Karita, Daffonchio, Daniele, Egan, Suhelen, Engelen, Aschwin H., Fusi, Marco, Thomas, Torsten, Vann, Laura, Hernandez-Agreda, Alejandra, Gan, Han Ming, Marzinelli, Ezequiel M., Steinberg, Peter D., Hardtke, Leo, and Macreadie, Peter I. (2019) A horizon scan of priorities for coastal marine microbiome research. Nature Ecology & Evolution, 3. pp. 1509-1520.

Hernandez-Agreda, Alejandra, Leggat, William, and Ainsworth, Tracy D. (2019) A place for taxonomic profiling in the study of the coral prokaryotic microbiome. FEMS Microbiology Letters, 366 (6). fnz063.

Hernandez-Agreda, Alejandra, Leggat, William, Bongaerts, Pim, Herrera, Cesar, and Ainsworth, Tracy D. (2018) Rethinking the coral microbiome: simplicity exists within a diverse microbial biosphere. mBio, 9 (5).

Hernandez-Agreda, Alejandra, Leggat, William, and Ainsworth, Tracy D. (2018) A comparative analysis of microbial DNA preparation methods for use with massive and branching coral growth forms. Frontiers In Microbiology, 9. 2146.

Hernandez-Agreda, Alejandra, Gates, Ruth D., and Ainsworth, Tracy D. (2017) Defining the core microbiome in corals' microbial soup. Trends in Microbiology, 25 (2). pp. 125-140.

Bonesso, Joshua Louis, Leggat, William, and Ainsworth, Tracy Danielle (2017) Exposure to elevated sea-surface temperatures below the bleaching threshold impairs coral recovery and regeneration following injury. PeerJ, 5. e3719.

Prazeres, Martina, Ainsworth, Tracy, Roberts, T. Edward, Pandolfi, John M., and Leggat, William (2017) Symbiosis and microbiome flexibility in calcifying benthic foraminifera of the Great Barrier Reef. Microbiome, 5 (38).

Ainsworth, T.D., Fordyce, A.J., and Camp, E.F. (2017) The other microeukaryotes of the coral reef microbiome. Trends in Microbiology, 25 (12). pp. 980-991.

Putnam, Hollie M., Barott, Katie L., Ainsworth, Tracy D., and Gates, Ruth D. (2017) The vulnerability and resilience of reef-building corals. Current Biology, 27 (11). R528-R540.

Kelly, Lisa A., Heintz, Tom, Lamb, Joleah B., Ainsworth, Tracy D., and Willis, Bette L. (2016) Ecology and pathology of novel plaque-like growth anomalies affecting a reef-building coral on the Great Barrier Reef. Frontiers in Marine Science, 3. 151. pp. 1-12.

Cinner, Joshua Eli, Pratchett, Morgan Stuart, Graham, Nicholas Anthony James Graham, Messmer, Vanessa, Fuentes, Mariana Menezes Prata Bezerra, Ainsworth, Tracy, Ban, Natalie, Bay, Line Kolind, Blythe, Jessica, Dissard, Delphine, Dunn, Simon, Evans, Louisa, Fabinyi, Michael, Fidelman, Pedro, Figueiredo, Joana, Frisch, Ashley, Fulton, Christopher John, Hicks, Christina Chemtai, Lukoschek, Vimoksalehi, Mallela, Jenny, Moya, Aurelie, Penin, Lucie, Rummer, Jodie Lynn, Walker, Stefan, and Williamson, David Hall (2016) A framework for understanding climate change impacts on coral reef social–ecological systems. Regional Environmental Change, 16 (4). pp. 1133-1146.

Ainsworth, Tracy D., Heron, Scott F., Ortiz, Juan Carlos, Mumby, Peter J., Grech, Alana, Ogawa, Daisie, Eakin, C. Mark, and Leggat, William (2016) Climate change disables coral bleaching protection on the Great Barrier Reef. Science, 352 (6283). pp. 338-342.

Ainsworth, Tracy D., and Gates, Ruth D. (2016) Corals' microbial sentinels: the coral microbiome will be key to future reef health. Science, 352 (6293). pp. 1518-1519.

Wada, Naohisa, Pollock, Frederic J., Willis, Bette L., Ainsworth, Tracy, Mano, Nobuhiro, and Bourne, David G. (2016) In situ visualization of bacterial populations in coral tissues: pitfalls and solutions. PeerJ, 4. e2424.

Correa, Adrienne M.S., Ainsworth, Tracy D., Rosales, Stephanie M., Thurber, Andrew R., Butler, Christopher R., and Thurber, Rebecca L. Vega (2016) Viral outbreak in corals associated with an in situ bleaching event: atypical herpes-like viruses and a new megavirus infecting Symbiodinium. Frontiers in Microbiology, 7. 127. pp. 1-14.

Bourne, David G., Ainsworth, Tracy D., and Willis, Bette L. (2016) White syndromes of Indo-Pacific corals. In: Woodley, Cheryl M., Downs, Craig A., Bruckner, Andrew W., Porter, James W., and Galloway, Sylvia B., (eds.) Diseases of Coral. John Wiley & Sons, Hoboken, NJ, USA, pp. 300-331.

Hernandez-Agreda, Alejandra, Leggat, William, Bongaerts, Pim, and Ainsworth, Tracy D. (2016) The microbial signature provides insight into the mechanistic basis of coral success across reef habitats. mBio, 7 (4). e00560-16. pp. 1-10.

Li, Xin, Gorle, Anil K., Ainsworth, Tracy D., Heimann, Kirsten, Woodward, Clifford E., Collins, J. Grant, and Keene, F. Richard (2015) RNA and DNA binding of inert oligonuclear ruthenium(II) complexes in live eukaryotic cells. Dalton Transactions, 44 (8). pp. 3594-3603.

Casey, Jordan M, Connolly, Sean R., and Ainsworth, Tracy D. (2015) Coral transplantation triggers shift in microbiome and promotion of coral disease associated potential pathogens. Scientific Reports, 5. 11903. pp. 1-11.

van De Water, Jeroen A.J.M., Leggat, William, Bourne, David G., Van Oppen, Madeleine J.H., Willis, Bette L., and Ainsworth, Tracy D. (2015) Elevated seawater temperatures have a limited impact on the coral immune response following physical damage. Hydrobiologia, 759 (1). pp. 201-214.

Hess, Sybille, Wenger, Amelia S., Ainsworth, Tracy D., and Rummer, Jodie L. (2015) Exposure of clownfish larvae to suspended sediment levels found on the Great Barrier Reef: impacts on gill structure and microbiome. Scientific Reports, 5. 10561. pp. 1-8.

Ainsworth, T.D., Knack, B., Ukani, L., Seneca, F., Weiss, Y., and Leggat, W. (2015) In situ hybridisation detects pro-apoptotic gene expression of a Bcl-2 family member in white syndrome-affected coral. Diseases of Aquatic Organisms, 117 (2). pp. 155-163.

Hess, Sybille, Wenger, Amelia, Ainsworth, Tracy, and Rummer, Jodie (2015) Too turbid for nemo: suspended sediment impacts gills and favours pathogenic bacteria in clownfish larvae. In: [Presented at 145th Annual Meeting of the American Fisheries Society]. From: AFS 2015: 145th Annual Meeting of the American Fisheries Society, 16-20 August 2015, Portland, OR, USA.

Bourne, D.G., Ainsworth, T.D., Pollock, F.J., and Willis, B.L. (2015) Towards a better understanding of white syndromes and their causes on Indo-Pacific coral reefs. Coral Reefs, 34 (1). pp. 233-242.

Ainsworth, Tracy D., Krause, Lutz, Bridge, Thomas, Torda, Gergely, Raina, Jean-Baptiste, Zakrzewski, Martha, Gates, Ruth D., Padilla-Gamino, Jacqueline L., Spalding, Heather L., Smith, Celia, Woolsey, Erika S., Bourne, David G., Bongaerts, Pim, Hoegh-Guldberg, Ove, and Leggat, Bill (2015) The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts. ISME Journal: multidisciplinary journal of microbial ecology, 9. pp. 2261-2274.

van de Water, A.J.M., Ainsworth, Tracy D., Leggat, William, Bourne, David G., Willis, Bette L., and Van Oppen, Madeleine J.H. (2015) The coral immune response facilitates protection against microbes during tissue regeneration. Molecular Ecology, 24 (13). pp. 3390-3404.

Casey, Jordan M., Ainsworth, Tracy D., Choat, J. Howard, and Connolly, Sean R. (2014) Farming behaviour of reef fishes increases the prevalence of coral disease associated microbes and black band disease. Proceedings of the Royal Society of London Series B, Biological Sciences, 281 (1788). 20141032. pp. 1-8.

Ogawa, D., Bobeszko, T., Ainsworth, T., and Leggat, W. (2013) The combined effects of temperature and CO₂ lead to altered gene expression in Acropora aspera. Coral Reefs, 32 (4). pp. 895-907.

Weiss, Yvonne, Forêt, Sylvain, Hayward, David C., Ainsworth, Tracy, King, Rob, Ball, Eldon E., and Miller, David J. (2013) The acute transcriptional response of the coral Acropora millepora to immune challenge: expression of GiMAP/IAN genes links the innate immune responses of corals with those of mammals and plants. BMC Genomics, 14. 400. pp. 1-12.

Ainsworth, Tracy (2012) In person: family-friendly science careers. Science Magazine, 18 May 2012.

Ainsworth, T.D., Wasmund, K., Ukani, L., Seneca, F., Yellowlees, D., Miller, D., and Leggat, W. (2011) Defining the tipping point. A complex cellular life/death balance in corals in response to stress. Scientific Report, 1. 160. pp. 1-9.

Leggat, William, Seneca, Francois, Wasmund, Kenneth, Ukani, Lubna, Yellowlees, David, and Ainsworth, Tracy D. (2011) Differential responses of the coral host and their algal symbiont to thermal stress. PLoS ONE, 6 (10). e26687. pp. 1-11.

Bay, Line Kolind, Cumbo, Vivian Ruth, Abrego, David, Kool, Johnathan Travis, Ainsworth, Tracy Danielle, and Willis, Bette Lynn (2011) Infection dynamics vary between Symbiodinium types and cell surface treatments during establishment of endosymbiosis with coral larvae. Diversity, 3 (3). pp. 356-374.

Graham, Nicholas A.J., Ainsworth, Tracy D., Baird, Andrew H., Ban, Natalie C., Bay, Line K., Cinner, Joshua E., De Freitas, Debora M., Diaz-Pulido, Guillermo, Dornelas, Maria, Dunn, Simon R., Fidelman, Pedro I.J., Foret, Sylvain, Good, Tatjana C., Kool, Johnathan, Mallela, Jennie, Penin, Lucie, Pratchett, Morgan S., and Williamson, David H. (2011) From microbes to people: tractable benefits of no-take areas for coral reefs. Oceanography and Marine Biology, 49. pp. 105-136.

Gates, Ruth D., and Ainsworth, Tracy D. (2011) The nature and taxonomic composition of coral symbiomes as drivers of performance limits in scleractinian corals. Journal of Experimental Marine Biology and Ecology, 408 (1-2). pp. 94-101.

Kvennefors, E. Charlotte E., Leggat, William, Kerr, Caroline C., Ainsworth, Tracy D., Hoegh-Guldberg, Ove, and Barnes, Andrew C. (2010) Analysis of evolutionarily conserved innate immune components in coral links immunity and symbiosis. Developmental and Comparative Immunology, 34 (11). pp. 1219-1229.

Brooker, R.M., Munday, P.L., and Ainsworth, T.D. (2010) Diets of coral-dwelling fishes of the genus Gobiodon with evidence of corallivory. Journal of Fish Biology, 76 (10). pp. 2578-2583.

Ainsworth, Tracy D., Thurber, Rebecca Vega, and Gates, Ruth D. (2010) The future of coral reefs: a microbial perspective. Trends in Ecology and Evolution, 25 (4). pp. 233-240.

Andersen, S.B, Vestergaard , M.L, Ainsworth, T.D, Hoegh-Guldberg, O., and Kühl, M. (2010) Acute tissue death (white syndrome) affects the microenvironment of tabular Acropora corals. Aquatic Biology, 10 (1). pp. 99-104.

Olson , N.D., Ainsworth, T.D., Gates, R.D., and Takabayashi, M. (2009) Diazotrophic bacteria associated with Hawaiian Montipora corals: diversity and abundance in correlation with symbiotic dinoflagellates. Journal of Experimental Marine Biology and Ecology, 371 (2). pp. 140-146.

Ainsworth, T.D., and Hoegh-Guldberg, O. (2009) Bacterial communities closely associated with coral tissues vary under experimental and natural reef conditions and thermal stress. Aquatic Biology, 4 (3). pp. 289-296.

Ainsworth, T.D., Hoegh-Guldberg, O., and Leggat, W. (2008) Imaging the fluorescence of marine invertebrates and their associated flora. Journal of Microscopy, 232 (2). pp. 197-199.

Ainsworth, T.D., Hoegh-Guldberg, O., Heron, S.F., Skirving, W.J., and Leggat, W. (2008) Early cellular changes are indicators of pre-bleaching thermal stress in the coral host. Journal of Experimental Marine Biology and Ecology, 364 (2). pp. 63-71.

Ainsworth, T. D., and Hoegh-Guldberg, O. (2008) Cellular processes of bleaching in the Mediterranean coral Oculina patagonica. Coral Reefs, 27 (3). pp. 593-597.

Ainsworth, T.D., Fine, M., Roff, G., and Hoegh-Guldberg, O. (2008) Bacteria are not the primary cause of bleaching in the Mediterranean coral Oculina patagonica. ISME Journal: multidisciplinary journal of microbial ecology, 4 (2). pp. 67-73.

Leggat, William, Ainsworth, Tracy, Bythell, John, Dove, Sophie, Gates, Ruth, Hoegh-Guldberg, Ove, Iglesias-Prieto, Roberto, and Yellowlees, David (2007) The hologenome theory disregards the coral holobiont. Nature Reviews Microbiology, 5. - .

Yarden, Oded, Ainsworth, Tracy D., Roff, George, Leggat, William, Fine, Maoz, and Hoegh-Guldberg, Ove (2007) Increased prevalence of ubiquitous ascomycetes in an acropoid coral (Acropora formosa) exhibiting symptoms of brown band syndrome and skeletal eroding band. Applied and Environmental Microbiology, 73 (8). pp. 2755-2757.

Ainsworth, T.D., Kramasky-Winter, E., Loya, Y., Hoegh-Guldberg, O., and Fine, M. (2007) Coral disease diagnostics: what's between a plague and a band? Applied and Environmental Microbiology, 73 (3). pp. 981-992.

Ainsworth, T.D., Kvennefors, E., Blackall, L.L., Fine, M., and Hoegh-Guldberg, O. (2007) Disease and cell death in white syndrome of Acroporid corals on the Great Barrier Reef. Marine Biology, 151. pp. 19-29.

Leggat, W., Ainsworth, T.D., Dove, S., and Hoegh-Guldberg, O. (2006) Aerial exposure influences bleaching patterns. Coral Reefs, 25 (3). p. 452.

Ainsworth, T.D., Fine, M., Blackall, L.L., and Hoegh-Guldberg, O. (2006) Fluorescence in situ hybridization and spectral imaging of coral-associated bacterial communities. Applied and Environmental Microbiology, 72 (4). pp. 3016-3020.

Fine, M., Roff, G., Ainsworth, T.D., and Hoegh-Guldberg, O. (2006) Phototrophic microendoliths bloom during coral "white syndrome". Coral Reefs, 25 (4). pp. 577-581.

Arvedlund, M., McCormick, M.I., and Ainsworth, T. (2000) Effects of photoperiod on growth of larvae and juveniles of the anemonefish Amphiprion melanopus. Naga - The ICLARM Quarterly , 23 (2). pp. 18-23.