Alvarez-Noriega, Mariana, Madin, Joshua S., Baird, Andrew H., Dornelas, Maria, and Connolly, Sean R. (2023) Disturbance-induced changes in population size structure promote coral biodiversity. American Naturalist, 202 (5). pp. 604-615.

Madin, Joshua S., Baird, Andrew H., Connolly, Sean R., Dornelas, Maria A., Alvarez-Noriega, Mariana, McWilliam, Michael J., Barbosa, Miguel, Blowes, Shane A., Cetina-Heredia, Paulina, Christie, Alec P., Cumbo, Vivian R., Diaz, Marcela, Emms, Madeleine A., Graham, Erin, Hansen, Dominique, Hisano, Mizue, Howells, Emily, Kuo, Chao-Yang, Palmer, Caroline, Hong, James Tan Chun, Zhi En Teo, Theophilus, and Woods, Rachael M. (2023) Six years of demography data for 11 reef coral species. Ecology and Evolution, 104 (5). e4017.

Zamborain-Mason, Jessica, Cinner, Joshua E., MacNeil, M. Aaron, Graham, Nicholas A.J., Hoey, Andrew S., Beger, Maria, Brooks, Andrew J., Booth, David J., Edgar, Graham J., Feary, David A., Ferse, Sebastian C.A., Friedlander, Alan M., Gough, Charlotte L.A., Green, Alison L., Mouillot, David, Polunin, Nicholas V.C., Stuart-smith, Rick D., Wantiez, Laurent, Williams, Ivor D., Wilson, Shaun K., and Connolly, Sean R. (2023) Sustainable reference points for multispecies coral reef fisheries. Nature Communications, 14 (1). 5368.

Morais, Renato A., Smallhorn-West, Patrick, Connolly, Sean R., Ngaluafe, Poasi Fale, Malimali, Siola’a, Halafihi, Tu’ikolongahau, and Bellwood, David R. (2023) Sustained productivity and the persistence of coral reef fisheries. Nature Sustainability, 6. 1240. pp. 1199-1209.

Figueiredo, Joana, Thomas, Christopher J., Deleersnijder, Eric, Lambrechts, Jonathan, Baird, Andrew H., Connolly, Sean R., and Hanert, Emmanuel (2022) Global warming decreases connectivity among coral populations. Nature Climate Change, 12 (1). pp. 83-87.

Turschwell, Mischa P., Connolly, Sean R., Schäfer, Ralf B., De Laender, Frederik, Campbell, Max D., Mantyka-Pringle, Chrystal, Jackson, Michelle C., Kattwinkel, Mira, Sievers, Michael, Ashauer, Roman, Côté, Isabelle M., Connolly, Rod M., van den Brink, Paul J., and Brown, Christopher J. (2022) Interactive effects of multiple stressors vary with consumer interactions, stressor dynamics and magnitude. Ecology Letters, 25 (6). pp. 1483-1496.

Dietzel, Andreas, Bode, Michael, Connolly, Sean R., and Hughes, Terry P. (2022) Reply to: Conclusions of low extinction risk for most species of reef-building corals are premature. Nature Ecology & Evolution, 6 (4). pp. 359-360.

Tsai, Cheng-Han, Sweatman, Hugh P.A., Thibaut, Loïc M., and Connolly, Sean R. (2022) Volatility in coral cover erodes niche structure, but not diversity, in reef fish assemblages. Science Advances, 8 (24). eabm6858.

Bairos-Novak, Kevin R., Hoogenboom, Mia O., van Oppen, Madeleine J., and Connolly, Sean (2021) Coral adaptation to climate change: meta-analysis reveals high heritability across multiple traits. Global Change Biology, 27 (22). pp. 5694-5710.

Hughes, Terry P., Kerry, James T., Connolly, Sean R., Alvarez-Romero, Jorge G., Eakin, C. Mark, Heron, Scott F., Gonzalez, Migdonio A., and Moneghetti, Joanne (2021) Emergent properties in the responses of tropical corals to recurrent climate extremes. Current Biology, 31 (23). pp. 5393-5399.

Dietzel, Andreas, Bode, Michael, Connolly, Sean R., and Hughes, Terry P. (2021) The population sizes and global extinction risk of reef-building coral species at biogeographic scales. Nature Ecology and Evolution, 5. pp. 663-669.

Dietzel, Andreas, Connolly, Sean R., Hughes, Terry P., and Bode, Michael (2021) The spatial footprint and patchiness of large-scale disturbances on coral reefs. Global Change Biology, 27 (19). pp. 4825-4838.

Morais, Renato A., Connolly, Sean R., and Bellwood, David R. (2020) Human exploitation shapes productivity–biomass relationships on coral reefs. Global Change Biology, 26 (3). pp. 1295-1305.

Dietzel, Andreas, Bode, Michael, Connolly, Sean R., and Hughes, Terry P. (2020) Long-term shifts in the colony size structure of coral populations along the Great Barrier Reef. Proceedings of the Royal Society of London Series B, Biological Sciences, 287 (1936).

Madin, Joshua S., Baird, Andrew H., Baskett, Marissa L., Connolly, Sean R., and Dornelas, Maria A. (2020) Partitioning colony size variation into growth and partial mortality. Biology Letters, 16 (1). 20190727.

Hughes, Terry P., Kerry, James T., Connolly, Sean R., Baird, Andrew H., Eakin, C. Mark, Heron, Scott F., Hoey, Andrew S., Hoogenboom, Mia O., Jacobson, Mizue, Liu, Gang, Pratchett, Morgan S., Skirving, William, and Torda, Gergely (2019) Ecological memory modifies the cumulative impact of recurrent climate extremes. Nature Climate Change, 9 (1). pp. 40-44.

Hughes, Terry P., Kerry, James T., Baird, Andrew H., Connolly, Sean R., Chase, Tory J., Dietzel, Andreas, Hill, Tessa, Hoey, Andrew S., Hoogenboom, Mia O., Jacobson, Mizue, Kerswell, Ailsa, Madin, Joshua S., Mieog, Abbie, Paley, Allison S., Pratchett, Morgan S., Torda, Gergely, and Woods, Rachael M. (2019) Global warming impairs stock-recruitment dynamics of corals. Nature, 568 (7752). pp. 387-401.

Thibaut, Loïc M., and Connolly, Sean R. (2019) Hierarchical modeling strengthens evidence for density dependence in observational time series of population dynamics. Ecology, 101 (1). e02893.

Moneghetti, Joanne, Figueiredo, Joana, Baird, Andrew H., and Connolly, Sean R. (2019) High-frequency sampling and piecewise models reshape dispersal kernels of a common reef coral. Ecology, 100 (8). e02730.

Hopf, Jess K., Jones, Geoffrey P., Williamson, David H., and Connolly, Sean R. (2019) Marine reserves stabilize fish populations and fisheries yields in disturbed coral reef systems. Ecological Applications, 29 (5). e01905.

Crandall, Eric D., Riginos, Cynthia, Bird, Chris E., Liggins, Libby, Treml, Eric, Beger, Maria, Barber, Paul H., Connolly, Sean R., Cowman, Peter F., Dibattista, Joseph D., Eble, Jeff A., Magnuson, Sharon F., Horne, John B., Kochzius, M, Lessios, Harilaos A., Liu, Shang Yin Vanson, Ludt, William B., Madduppa, Hawis, Pandolfi, John M., Toonen, Robert J., Diversity of the Indo‐Pacific Network, and Gaither, Michelle R. (2019) The molecular biogeography of the Indo-Pacific: testing hypotheses with multispecies genetic patterns. Global Ecology and Biogeography, 28 (7). pp. 943-960.

Álvarez Noriega, Mariana, Baird, Andrew H., Dornelas, Maria, Madin, Joshua, and Connolly, Sean R. (2018) Negligible effect of competition on coral colony growth. Ecology, 99 (6). pp. 1347-1356.

Madin, Joshua S., Baird, Andrew H., Bridge, Tom C.L., Connolly, Sean R., Zawada, Kyle J.A., and Dornelas, Maria (2018) Cumulative effects of cyclones and bleaching on coral cover and species richness at Lizard Island. Marine Ecology Progress Series, 604. pp. 263-268.

Baird, Andrew H., Álvarez-Noriega, Mariana, Cumbo, Vivian R., Connolly, Sean R., Dornelas, Maria, and Madin, Joshua S. (2018) Effects of tropical storms on the demography of reef corals. Marine Ecology - Progress Series, 606. pp. 29-38.

Hughes, Terry P., Kerry, James T., Baird, Andrew H., Connolly, Sean R., Dietzel, Andreas, Eakin, C. Mark, Heron, Scott F., Hoey, Andrew S., Hoogenboom, Mia O., Liu, Gang, McWilliam, Michael J., Pears, Rachel J., Pratchett, Morgan S., Skirving, William J., Stella, Jessica S., and Torda, Gergely (2018) Global warming transforms coral reef assemblages. Nature, 556 (7702). pp. 492-496.

Hughes, Terry P., Anderson, Kristen D., Connolly, Sean R., Heron, Scott F., Kerry, James T., Lough, Janice M., Baird, Andrew H., Baum, Julia, Berumen, Michael L., Bridge, Tom C., Claar, Danielle C., Eakin, C. Mark, Gilmour, James P., Graham, Nicholas A.J., Harrison, Hugo, Hobbs, Jean-Paul A., Hoey, Andrew S., Hoogenboom, Mia, Lowe, Ryan J., McCulloch, Malcolm T., Pandolfi, John M., Pratchett, Morgan, Schoepf, Verena, Torda, Gergely, and Wilson, Shaun K. (2018) Spatial and temporal patterns of mass bleaching of corals in the Anthropocene. Science, 359 (6371). pp. 80-83.

Zamborain-Mason, Jessica, Russ, Garry R., Abesamis, Rene A., Bucol, Abner A., and Connolly, Sean R. (2017) Network theory and metapopulation persistence: incorporating node self-connections. Ecology Letters, 20 (7). pp. 815-831.

Blowes, Shane A., Pratchett, Morgan S., and Connolly, Sean R. (2017) Aggression, interference, and the functional response of coral-feeding butterflyfishes. Oecologia, 184 (3). pp. 675-684.

Dornelas, Maria, Madin, Joshua S., Baird, Andrew H., and Connolly, Sean R. (2017) Allometric growth in reef-building corals. Proceedings of the Royal Society of London Series B, Biological Sciences, 284 (1851). 20170053.

Everingham, Yvette L., Gyuris, Emma, and Connolly, Sean R. (2017) Enhancing student engagement to positively impact mathematics anxiety, confidence and achievement for interdisciplinary science subjects. International Journal of Mathematical Education in Science and Technology, 48 (8). pp. 1153-1165.

Hughes, Terry P., Kerry, James T., Álvarez-Noriega, Mariana, Alvarez-Romero, Jorge G., Anderson, Kristen D., Baird, Andrew, Babcock, Russell C., Beger, Maria, Bellwood, David, Berkelmans, Ray, Bridge, Tom C., Butler, Ian R., Byrne, Maria, Cantin, Neal E., Comeau, Steeve, Connolly, Sean, Cumming, Graeme S., Dalton, Steven J., Diaz-Pulido, Guillermo, Eakin, C. Mark, Figueira, Will F., Gilmour, James P., Harrison, Hugo B., Heron, Scott F., Hoey, Andrew S., Hobbs, Jean-Paul A., Hoogenboom, Mia O., Kennedy, Emma V., Kuo, Chao-Yang, Lough, Janice M., Lowe, Ryan J., Liu, Gang, McCulloch, Malcolm T., Malcolm, Hamish A., McWilliam, Michael J., Pandolfi, John M., Pears, Rachel J., Pratchett, Morgan S., Schoepf, Verena, Simpson, Tristan, Skirving, William J., Sommer, Brigitte, Torda, Gergely, Wachenfeld, David R., Willis, Bette L., and Wilson, Shaun (2017) Global warming and recurrent mass bleaching of corals. Nature, 543 (7645). pp. 373-377.

Blowes, Shane A., Pratchett, Morgan S., and Connolly, Sean R. (2017) No change in subordinate butterflyfish diets following removal of behaviourally dominant species. Coral Reefs, 36. pp. 213-222.

Antao, Laura H., Connolly, Sean R., Magurran, Anne E., Soares, Amadeu, and Dornelas, Maria (2017) Prevalence of multimodal species abundance distributions is linked to spatial and taxonomic breadth. Global Ecology and Biogeography, 26 (2). pp. 203-215.

Connolly, Sean R., Keith, Sally A., Colwell, Robert K., and Rahbek, Carsten (2017) Process, mechanism, and modeling in macroecology. Trends in Ecology & Evolution, 32 (11). pp. 835-844.

Graham, E.M., Baird, A.H., Connolly, S.R., Sewell, M.A., and Willis, B.L. (2017) Uncoupling temperature-dependent mortality from lipid depletion for scleractinian coral larvae. Coral Reefs, 36 (1). pp. 97-104.

Casey, Jordan M., Baird, Andrew H., Brandl, Simon J., Hoogenboom, Mia O., Rizzari, Justin R., Frisch, Ashley J., Mirbach, Christopher E., and Connolly, Sean R. (2017) A test of trophic cascade theory: fish and benthic assembalges across a predator density gradient on coral reefs. Oecologia, 183 (1). pp. 161-175.

Connolly, Sean R., Hughes, Terry P., and Bellwood, David R. (2017) A unified model explains commonness and rarity on coral reefs. Ecology Letters, 20 (4). pp. 477-486.

Malerba, Martino E., Heimann, Kirsten, and Connolly, Sean R. (2016) Improving dynamic phytoplankton reserve-utilization models with an indirect proxy for internal nitrogen. Journal of Theoretical Biology, 404. pp. 1-9.

Hopf, Jess K., Jones, Geoffrey P., Williamson, David H., and Connolly, Sean R. (2016) Synergistic effects of marine reserves and harvest controls on the abundance and catch dynamics of a coral reef fishery. Current Biology, 26 (12). pp. 1543-1548.

Madin, Joshua S., Hoogenboom, Mia O., Connolly, Sean R., Darling, Emily S., Falster, Daniel S., Huang, Danwei, Keith, Sally A., Mizerek, Toni, Pandolfi, John M., Putnam, Hollie M., and Baird, Andrew H. (2016) A trait-based approach to advance coral reef science. Trends in Ecology & Evolution, 31 (6). pp. 419-428.

Hughes, T.P., Cameron, D.S., Chin, A., Connolly, S.R., Day, J.C., Jones, G.P., McCook, L., McGinnity, P., Mumby, P.J., Pears, R.J., Pressey, R.L., Russ, G.R., Tanzer, J., Tobin, A., and Young, M.A.L. (2016) A critique of claims for negative impacts of Marine Protected Areas on fisheries. Ecological Applications, 26 (2). pp. 637-641.

Álvarez-Noriega, Mariana, Baird, Andrew H., Dornelas, Maria, Madin, Joshua S., Cumbo, Vivian R., and Connolly, Sean R. (2016) Fecundity and the demographic strategies of coral morphologies. Ecology, 97 (12). pp. 3485-3493.

Hopf, Jess K., Jones, Geoffrey P., Williamson, David H., and Connolly, Sean R. (2016) Fishery consequences of marine reserves: short-term pain for longer-term gain. Ecological Applications, 26 (3). pp. 818-829.

Chan, Neil C.S., Wangpraseurt, Daniel, Kuhl, Michael, and Connolly, Sean R. (2016) Flow and coral morphology control coral surface pH: implications for the effects of ocean acidification. Frontiers in Marine Science, 26. pp. 637-641.

Mokany, Karel, Ferrier, Simon, Connolly, Sean R., Dunstan, Piers K., Fulton, Elizabeth A., Harfoot, Michael B., Harwood, Thomas D., Richardson, Anthony J., Roxburgh, Stephen H., Scharlemann, Jörn P.W., Tittensor, Derek P., Westcott, David A., and Wintle, Brendan A. (2016) Integrating modelling of biodiversity composition and ecosystem function. Oikos, 125 (1). pp. 10-19.

Malerba, Martino, Heimann, Kirsten, and Connolly, Sean R. (2016) Nutrient utilization traits vary systematically with intraspecific cell size plasticity. Functional Ecology, 30 (11). pp. 1745-1755.

Malerba, Martino E., Connolly, Sean R., and Heimann, Kirsten (2016) Standard flow cytometry as a rapid and non-destructive proxy for cell nitrogen quota. Journal of Applied Phycology, 28 (2). pp. 1085-1095.

Madin, Joshua S., Anderson, Kristen D., Andreasen, Magnus Heide, Bridge, Tom C.L., Cairns, Stephen d., Connolly, Sean R., Darling, Emily S., Diaz, Marcela, Falster, Daniel S., Franklin, Erik C., Gates, Ruth, Hoogenboom, Mia O., Huang, Danwei, Keith, Sally A., Kosnik, Matthew A., Kuo, Chao-Yang, Lough, Janice M., Lovelock, Catherine E., Luiz, Osmar, Martinelli, Julieta, Mizerek, Toni, Pandolfi, John M., Pochon, Xavier, Pratchett, Morgan S., Putnam, Hollie M., Roberts, T. Edward, Stat, Michael, Wallace, Carden C., Widman, Elizabeth, and Baird, Andrew H. (2016) The coral trait database: a curated database of trait information for coral species from the global oceans. Scientific Data, 3. 160017. pp. 1-21.

Malerba, Martino E., Connolly, Sean R., and Heimann, Kirsten (2015) An experimentally validated nitrate–ammonium–phytoplankton model including effects of starvation length and ammonium inhibition on nitrate uptake. Ecological Modelling, 317. pp. 30-40.

Freilich, Mara A., and Connolly, Sean R. (2015) Phylogenetic community structure when competition and environmental filtering determine abundances. Global Ecology and Biogeography , 24 (12). pp. 1390-1400.

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.

Casey, J.M., Choat, J.H., and Connolly, S.R. (2015) Coupled dynamics of territorial damselfishes and juvenile corals on the reef crest. Coral Reefs, 34. pp. 1-11.

MacNeil, M. Aaron, and Connolly, Sean R. (2015) Multi-scale patterns and processes in reef fish abundance. In: Mora, Camilo, (ed.) Ecology of Fishes on Coral Reefs. Cambridge University Press, Cambridge, UK, pp. 116-124.

Hughes, Terry P., Bellwood, David R., Connolly, Sean R., Cornell, Howard V., and Karlson, Ronald H. (2014) Double jeopardy and global extinction risk in corals and reef fishes. Current Biology, 24 (24). pp. 2946-2951.

Connolly, Sean R., Macneil, M. Aaron, Caley, M. Julian, Knowlton, Nancy, Cripps, Ed, Hisano, Mizue, Thibaut, Loïc M., Bhattacharya, Bhaskar D., Benedetti-Cechi, Lisandro, Brainard, Russell E., Brandt, Angelika, Bulleri, Fabio, Ellingsen, Kari E., Kaiser, Stefanie, Kröncke, Ingrid, Linse, Katrin, Maggi, Elena, O'Hara, Timothy D., Plaisance, Laetititia, Poore, Gary C.B., Sarkar, Santosh K., Satpathy, Kamala, Schückel, Ulrike, Williams, Alan, and Wilson, Robin S. (2014) Commonness and rarity in the marine biosphere. Proceedings of the National Academy of Sciences of the United States of America, 111 (23). pp. 8524-8529.

Ban, Stephen S., Graham, Nicholas A.J., and Connolly, Sean R. (2014) Evidence for multiple stressor interactions and effects on coral reefs. Global Change Biology, 20 (3). pp. 681-697.

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.

Keith, Sally A., Kerswell, Ailsa P., and Connolly, Sean R. (2014) Global diversity of marine macroalgae: environmental conditions explain less variation in the tropics. Global Ecology and Biogeography, 23 (5). pp. 517-529.

Rizzari, Justin R., Frisch, Ashley J., and Connolly, Sean R. (2014) How robust are estimates of coral reef shark depletion? Biological Conservation, 176. pp. 39-47.

Figueiredo, Joana, Baird, Andrew, Harii, Saki, and Connolly, Sean R. (2014) Increased local retention of reef coral larvae as a result of ocean warming. Nature Climate Change, 4 (6). pp. 498-502.

Madin, Joshua S., Baird, Andrew H., Dornelas, Maria, and Connolly, Sean R. (2014) Mechanical vulnerability explains size-dependent mortality of reef corals. Ecology Letters, 17 (8). pp. 1008-1015.

Graham, Erin M., Baird, Andrew H., Willis, Bette L., and Connolly, Sean R. (2013) Effects of delayed settlement on post-settlement growth and survival of scleractinian coral larvae. Oecologia, 173 (2). pp. 431-438.

Blowes, Shane A., Pratchett, Morgan S., and Connolly, Sean R. (2013) Heterospecific aggression and dominance in a guild of coral-feeding fishes: the roles of dietary ecology and phylogeny. American Naturalist, 182 (2). pp. 157-168.

Hughes, Terry P., Connolly, Sean R., and Keith, Sally A. (2013) Geographic ranges of reef corals (Cnidaria: Anthozoa: Scleractinia) in the Indo-Pacific. Ecology, 94 (7). p. 1659.

Graham, E.M., Baird, A.H., Connolly, S.R., Sewell, M.A., and Willis, B.L. (2013) Rapid declines in metabolism explain extended coral larval longevity. Coral Reefs, 32 (2). pp. 539-549.

Keith, S.A., Baird, A.H., Hughes, T.P., Madin, J.S., and Connolly, S.R. (2013) Faunal breaks and species composition of Indo-Pacific corals: the role of plate tectonics, environment and habitat distribution. Proceedings of the Royal Society of London Series B, Biological Sciences, 280 (1763). pp. 1-9.

Figueiredo, Joana, Baird, Andrew H., and Connolly, Sean R. (2013) Synthesizing larval competence dynamics and reef-scale retention reveals a high potential for self-recruitment in corals. Ecology, 94 (3). pp. 650-659.

Thibaut, Loïc M., and Connolly, Sean R. (2013) Understanding diversity–stability relationships: towards a unified model of portfolio effects. Ecology Letters, 16 (2). pp. 140-150.

Keith, S.A., and Connolly, S.R. (2013) Effects of diversity-dependent colonization–extinction dynamics on the mid-domain effect. Global Ecology and Biogeography, 22 (7). pp. 773-783.

Connolly, Sean R., and Kosnik, Matthew A. (2013) Fossil record. In: Levin, Simon A., (ed.) Encyclopedia of Biodiversity. Encyclopedia of Biodiversity, 3 . Elsevier, Amsterdam, Netherlands, pp. 537-544.

Ban, S.S., Graham, N.A.J., and Connolly, S.R. (2013) Relationships between temperature, bleaching and white syndrome on the Great Barrier Reef. Coral Reefs, 32 (1). pp. 1-12.

Chan, Neil C.S., and Connolly, Sean R. (2013) Sensitivity of coral calcification to ocean acidification: a meta-analysis. Global Change Biology, 19 (1). pp. 282-290.

Bode, Michael, Connolly, Sean R., and Pandolfi, John M. (2012) Species differences drive nonneutral structure in Pleistocene coral communities. American Naturalist, 180 (5). pp. 577-588.

Figueiredo, Joana, and Connolly, Sean R. (2012) Dispersal-mediated coexistence under recruitment limitation and displacement competition. Ecological Modelling, 243. pp. 133-142.

Thibaut, Loïc M., Connolly, Sean R., and Sweatman, Hugh P.A. (2012) Diversity and stability of herbivorous fishes on coral reefs. Ecology, 93 (4). pp. 891-901.

Connolly, Sean R., and Thibaut, Loic M. (2012) A comparative analysis of alternative approaches to fitting species-abundance models. Journal of Plant Ecology, 5 (1). pp. 32-45.

Hobbs, Jean-Paul A., Jones, Geoffrey P., Munday, Philip L., Connolly, Sean R., and Srinivasan, Maya (2012) Biogeography and the structure of coral reef fish communities on isolated islands. Journal of Biogeography, 39 (1). pp. 130-139.

Blowes, Shane A., and Connolly, Sean R. (2012) Risk spreading, connectivity, and optimal reserve spacing. Ecological Applications, 22 (1). pp. 311-321.

Madin, Joshua S., Hughes, Terry P., and Connolly, Sean R. (2012) Calcification, storm damage and population resilience of tabular corals under climate change. PLoS ONE, 7 (10). e46637. pp. 1-10.

Chan, Neil C. S., Connolly, Sean R., and Mapstone, Bruce D. (2012) Effects of sex change on the implications of marine reserves for fisheries. Ecological Applications, 22 (3). pp. 778-791.

Barbosa, Miguel, Connolly, Sean R., Hisano, Mizue, Dornelas, Maria, and Magurran, Anne E. (2012) Fitness consequences of female multiple mating: a direct test of indirect benefits. BMC Evolutionary Biology, 12. 185. pp. 1-11.

Connolly, S.R., Lopez-Yglesias, M.A., and Anthony, K.R.N. (2012) Food availability promotes rapid recovery from thermal stress in a scleractinian coral. Coral Reefs, 31 (4). pp. 951-960.

Madin, Joshua S., Hoogenboom, Mia O., and Connolly, Sean R. (2012) Integrating physiological and biomechanical drivers of population growth over environmental gradients on coral reefs. The Journal of Experimental Biology, 215 (6). pp. 968-976.

Malerba, Martino E., Connolly, Sean R., and Heimann, Kirsten (2012) Nitrate–nitrite dynamics and phytoplankton growth: formulation and experimental evaluation of a dynamic model. Limnology and Oceanography, 57 (5). pp. 1555-1571.

Keith, Sally A., Webb, Tom J., Bohning-Gaese, Katrin, Connolly, Sean R., Dulvy, Nicholas K., Eigenbrod, Felix, Jones, Kate E., Price, Trevor, Redding, David W., Owens, Ian P.F., and Isaac, Nick J.B. (2012) What is macroecology? Biology Letters, 8 (6). pp. 904-906.

Pandolfi, John, Connolly, Sean, Marshall, Dustin J., and Cohern, Anne L. (2011) The future of coral reefs - a response. Science, 334 (6062). pp. 1495-1496.

Hoogenboom, M.O., Connolly, S.R., and Anthony, K.R.N. (2011) Biotic and abiotic correlates of tissue quality for common scleractinian corals. Marine Ecology Progress Series, 438. pp. 119-128.

Hisano, Mizue, Connolly, Sean R., and Robbins, William D. (2011) Population growth rates of reef sharks with and without fishing on the Great Barrier Reef: robust estimation with multiple models. PLoS ONE, 6 (9). e25028. pp. 1-10.

Cetina-Heredia, Paulina, and Connolly, Sean R. (2011) A simple approximation for larval retention around reefs. Coral Reefs, 30 (3). pp. 593-605.

Karlson, Ronald H., Connolly, Sean R., and Hughes, Terence P. (2011) Spatial variance in abundance and occupancy of corals across broad geographic scales. Ecology, 92 (6). pp. 1282-1291.

Pandolfi, John M., Connolly, Sean R., Marshall, Dustin J., and Cohen, Anne L. (2011) Projecting coral reef futures under global warming and ocean acidification. Science, 333 (6041). pp. 418-422.

Penin, Lucie, Michonneau, François, Baird, Andrew H., Connolly, Sean R., Pratchett, Morgan S., Kayal, Mohsen, and Adjeroud, Mehdi (2010) Early post-settlement mortality and the structure of coral assemblages. Marine Ecology Progress Series, 408. pp. 55-64.

Salomon, Yacov, Connolly, Sean R., and Bode, Lance (2010) Effects of asymmetric dispersal on the coexistence of competing species. Ecology Letters, 13 (4). pp. 432-441.

Connolly, Sean R., and Baird, Andrew H. (2010) Estimating dispersal potential for marine larvae: dynamic models applied to scleractinian corals. Ecology, 91 (12). pp. 3572-3583.

Elmhirst, Toby, Connolly, Sean R., and Hughes, Terry P. (2009) Connectivity, regime shifts and the resilience of coral reefs. Coral Reefs, 28 (4). pp. 949-957.

Hoogenboom, Mia O., Connolly, Sean R., and Anthony, Kenneth R.N. (2009) Effects of photoacclimation on the light niche of corals: a process-based approach. Marine Biology, 156 (12). pp. 2493-2503.

Gotelli, Nicholas J., Anderson, Marti J., Hector, T. Arita, Chao, Anne, Colwell, Robert K., Connolly, Sean R., Currie, David J., Dunn, Robert R., Graves, Gary R., Green, Jessica L., Grytnes, John-Arvid, Jiang, Yi-Huei, Jetz, Walter, Lyons, S. Kathleen, McCain, Christy M., Magurran, Anne E., Rahbek, Carsten, Rangel, Thiago F.L.V.B., Soberón, Jorge, Webb, Campbell O., and Willig, Michael R. (2009) Patterns and causes of species richness: a general simulation model for macroecology. Ecology Letters, 12 (9). pp. 873-886.

Almany, G.R., Connolly, S.R., Heath, D.D., Hogan, J.D., Jones, G.P., McCook, L.J., Mills, M., Pressey, R.L., and Williamson, D.H. (2009) Connectivity, biodiversity conservation and the design of marine reserve networks for coral reefs. Coral Reefs, 28 (2). pp. 339-351.

Hoogenboom, Mia O., and Connolly, Sean R. (2009) Defining fundamental niche dimensions of corals: synergistic effects of colony size, light, and flow. Ecology, 90 (3). pp. 767-780.

Connolly, Sean R. (2009) Macroecological theory and the analysis of species richness gradients. In: Witman, Jon D., and Roy, Kaustuv, (eds.) Marine Macroecology. University Of Chicago , Chicago, USA, pp. 279-309.

Connolly, Sean R, Dornelas, Maria, Bellwood, David R., and Hughes, Terence P (2009) Testing species abundance models: a new bootstrap approach applied to Indo-Pacific coral reefs. Ecology, 90 (11). pp. 3138-3149.

Madin, Joshua S., O'Donnell, Michael J., and Connolly, Sean R. (2008) Climate-mediated mechanical changes to post-disturbance coral assemblages. Biology Letters, 4 (5). pp. 490-493.

Dornelas, Maria, and Connolly, Sean (2008) Multiple modes in a coral species abundance distribution. Ecology Letters, 11 (10). pp. 1008-1016.

Belmaker, Jonathan, Ziv, Yaron, Shashar, Nadav, and Connolly, Sean R. (2008) Regional variation in the hierarchical partitioning of diversity in coral-dwelling fishes. Ecology, 89 (10). pp. 2829-2840.

Graham, E.M., Baird, A.H., and Connolly, S.R. (2008) Survival dynamics of scleractinian coral larvae and implications for dispersal. Coral Reefs, 27 (3). pp. 529-539.

Hoogenboom, Mia O., Connolly, Sean R., and Anthony, Kenneth R.N. (2008) Interactions between morphological and physiological plasticity optimize energy acquisition in corals. Ecology, 89 (4). pp. 1144-1154.

Anthony, Kenneth R.N., Connolly, Sean R., and Hoegh-Guldberg, Ove (2007) Bleaching, energetics, and coral mortality risk: Effects of temperature, light, and sediment regime. Limnology and Oceanography, 52 (2). pp. 716-726.

Robbins, William D., Hisano, Mizue, Connolly, Sean R., and Choat, J. Howard (2006) Ongoing collapse of coral-reef shark populations. Current Biology, 16 (23). pp. 2314-2319.

Madin, Joshua S., and Connolly, Sean R. (2006) Ecological consequences of major hydrodynamic disturbances on coral reefs. Nature, 444 (7118). pp. 477-480.

Madin, Joshua S., Black, Kerry P., and Connolly, Sean R. (2006) Scaling water motion on coral reefs: from regional to organismal scales. Coral Reefs, 25 (4). pp. 635-644.

Hoogenboom, Mia O., Anthony, Kenneth R.N., and Connolly, Sean R. (2006) Energetic cost of photoinhibition in corals. Marine Ecology Progress Series, 313. pp. 1-12.

Dornelas, Maria, Connolly, Sean R., and Hughes, Terrence P. (2006) Coral reef diversity refutes the neutral theory of biodiversity. Nature, 440 (7080). pp. 80-82.

Connolly, Sean R., Hughes, Terry P., Bellwood, David R., and Karlson, Ronald H. (2005) Community structure of corals and reef fishes at multiple scales. Science, 309 (5739). pp. 1363-1365.

Connolly, Sean R. (2005) Process-based models of species distributions and the mid-domain effect. American Naturalist, 166 (1). pp. 1-11.

Bellwood, D.R., Hughes, T.P., Connolly, S.R., and Tanner, J. (2005) Environmental and geometric constraints on Indo-Pacific coral reef biodiversity. Ecology Letters, 8 (6). pp. 643-651.

Anthony, K.R.N., Hoogenboom, M. O., and Connolly, S.R. (2005) Adaptive variation in coral geometry and the optimization of internal colony light climates. Functional Ecology, 19 (1). pp. 17-26.

Anthony, Kenneth R. N., and Connolly, Sean R. (2004) Environmental limits to growth: physiological niche boundaries of corals along turbidity - light gradients. Oecologia, 141 (3). pp. 373-384.

Connolly, Sean R., and Muko, Soyoka (2003) Space preemption, size-dependent competition, and the coexistence of clonal growth forms. Ecology, 84 (11). pp. 2979-2988.

Hughes, T.P., Baird, A.H., Bellwood, D.R., Card, M., Connolly, S.R., Folke, C., Grosberg, R., Hoegh-Guldberg, O., Jackson, J.B.C., Kleypas, J., Lough, J.M., Marshall, P.A., Nyström, M., Palumbi, S.R., Pandolfi, J.M., Rosen, B., and Roughgarden, J. (2003) Climate change, human impacts, and the resilience of coral reefs. Science, 301 (5635). pp. 929-933.

Connolly, Sean R., Bellwood, David R., and Hughes, Terence P. (2003) Indo-Pacific biodiversity of coral Rreefs: deviations from a mid-domain model. Ecology, 84 (8). pp. 2178-2190.

Connolly, Sean R., and Miller, Arnold I. (2002) Global Ordovician faunal transitions in the marine benthos: ultimate causes. Paleobiology, 28 (1). pp. 26-40.

Hughes, Terry P., Bellwood, David R., and Connolly, Sean R. (2002) Biodiversity hotspots, centres of endemicity, and the conservation of coral reefs. Ecology Letters, 5 (6). pp. 775-784.

Anthony, Kenneth R.N., Connolly, Sean R., and Willis, Bette L. (2002) Comparative analysis of energy allocation to tissue and skeletal growth in corals. Limnology and Oceanography, 47 (5). pp. 1417-1429.

Connolly, Sean, Menge, Bruce A., and Roughgarden, Joan (2001) A latitudinal gradient in recruitment of intertidal invertebrates in the northeast Pacific Ocean. Ecology, 82 (7). pp. 1799-1813.

Connolly, Sean R., and Miller, Arnold I. (2001) Joint estimation of sampling and turnover rates from fossil databases: capture-mark-recapture methods revisited. Paleobiology, 27 (4). pp. 751-767.

Miller, Arnold I., and Connolly, Sean R. (2001) Substrate affinities of higher taxa and the Ordovician Radiation. Paleobiology, 27 (4). pp. 768-778.