Publications by Year

  

In press

2016

2015

2014

2013

2012

2011

2010

2009

2008

2007

2006

2005

2004

2003

2002

2001

2000

1999

1998

        

In press

Hopf, J.K., G.P. Jones, D.H. Williamson, and S.R. Connolly. In press. Synergistic effects of marine reserves and harvest controls on the abundance and catch dynamics of a coral reef fishery. Current Biology, accepted 7 Apr 2016.

Hopf, J.K., G.P. Jones, D.H. Williamson, and S.R. Connolly. In press. Fishery consequences of marine reserved: short-term pain for longer-term gain. Ecological Applications, accepted 18 Aug 2015.

Malerba, M.E. K. Heimann, and S.R. Connolly. In press. Nutrient utilization traits vary systematically with intraspecific cell size plasticity. Functional Ecology, accepted 21 Feb 2016. DOI: 10.1111/1365-2435.12662

Madin, J.S., M. Hoogenboom, S.R. Connolly, E. Darling, D. Falster, D. Huang, S. Keith, T. Mizerek, J. Pandolfi, H. Putnam, A.H. Baird. In press. A trait-based approach to advance coral reef science. Trends in Ecology and Evolution. DOI: 10.1016/j.tree.2016.02.012.

2016

Chan, N.C.S., D. Wangpraseurt, M. Kühl, and S.R. Connolly. 2016. Flow and coral morphology control coral surface pH: Implications for the effects of ocean acidification. Frontiers in Marine Science, 3:10. DOI 10.3389/fmars.2016.00010.

Hughes, T.P., D.S. Cameron, A. Chin, S.R. Connolly, J.C. Day, G.P. Jones, L. McCook, P. McGinnity, P.J. Mumby, R.J.Pears, R.L. Pressey, G.R. Russ, J. Tanzer, A. Tobin, M.A.L. Young. 2016. A critique of claims for negative impacts of Marine Protected Areas on fisheries. Ecological Applications, 26(2): 637-641. DOI: 10.1890/15-0457.1

Madin, J.S., K. Anderson, M. Andreasen, T. Bridge, S. Cairns, S.R. Connolly, E. Darling, M. Diaz, D. Falster, E. Franklin, R. Gates, M. Hoogenboom, D. Huang, S. Keith, M. Kosnik, C-Y. Kuo, J. Lough, C. Lovelock, O. Luiz, J. Martinelli, T. Mizerek, J. Pandolfi, X. Pochon, M.S. Pratchett, H. Putnam, E. Roberts, M. Stat, C. Wallace, E. Widman, and A.H. Baird. 2016. The coral trait database, a curated database of trait information for coral species from the global oceans. Nature Scientific Data, 3: 160017 (21 pages).

Malerba, M.E., S.R. Connolly, and K. Heimann. 2016. Standard flow cytometry as a rapid and non-destructive proxy for cell nitrogen quota. Journal of Applied Phycology, 28(2): 1085-1095. DOI 10.1007/s10811-015-0642-1.

Mokany, K., S. Ferrier, S.R. Connolly, P.K. Dunstan, E.A. Fulton, M.C. Harfoot, T.D. Harwood, A.J. Richardson, S.H. Rox-burgh, J.P.W. Scharlemann, D.P. Tittensor, D.A. Westcott, and B.A. Wintle. 2016. Integrating modelling of biodiversity composition and ecosystem function. Oikos, 125: 10-19.

2015

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

Casey, J.M., S.R. Connolly, and T.D. Ainsworth. 2015. Coral transplantation triggers shift in microbiome and promotion of coral disease associated potential pathogens. Scientific Reports, 5: 11903. DOI 10.1038/srep11903.

Freilich, M.A. and S.R. Connolly. 2015. Phylogenetic community structure when competition and environmental filtering determine abundances. Global Ecology and Biogeography, 24: 1390-1400.

MacNeil, M.A. and S.R. Connolly. 2015. Multi-scale patterns and processes in reef fish abundance. Pages 116-124 in Mora, C., editor. Ecology of fishes on coral reefs. Cambridge University Press, Cambridge, UK.

Malerba, M.A., S.R. Connolly, and K. Heimann. 2015. An experimentally validated nitrate-ammonium-phytoplankton model including effects of starvation length and ammonium inhibition on nitrate. Ecological Modelling, 317: 30-40.

2014

Ban, S.S., N.A.J. Graham, and S.R. Connolly. 2014. Evidence for multiple stressor interactions and effects on coral reefs. Global Change Biology, 20: 681-697.

Casey, J.M., T.D. Ainsworth, J.H. Choat, and S.R. Connolly. 2014. Farming behaviour of reef fishes increases the prevalence of coral disease associated microbes and the prevalence of black band disease. Proceedings of the Royal Society of London, Series B, 281: 20141032.

Connolly, S.R., M.A. MacNeil, M.J. Caley, N. Knowlton, E. Cripps, M. Hisano, L.M. Thibaut, B.D. Bhattacharya, L. Benedetti-Cecchi, R.E. Brainard, A. Brandt, F. Bulleri, K.E. Ellingsen, S. Kaiser, I. Kröncke, K. Linse, E. Maggi, T. O’Hara, L. Plaisance, G.C.B. Poore, S.K. Sarkar, K.K. Satpathy, U. Schückel, A. Williams, R.S. Wilson. 2014. Commonness and rarity in the marine biosphere. Proceedings of the National Academy of Sciences, USA 111: 8524-8529. (Reviewed by Faculty of 1000)

Figueiredo, J., A.H. Baird, S. Harii, and S.R. Connolly. 2014. Increased local retention of reef coral larvae as a result of ocean warming. Nature Climate Change, 4: 498-502.

Highes, T.P., D.R. Bellwood, S.R. Connolly, H.V. Cornell, and R.H. Karlson. 2014. Double jeopardy and global extinction risk in corals and reef fishes. Current Biology, 24: 1-6.

Keith, S.A., A.P. Kerswell, and S.R. Connolly. 2014. Global diversity of marine macroalgae: environmental conditions explain less variation in the tropics. Global Ecology and Biogeography, 23: 517-529.

Madin, J.S., A.H. Baird, M. Dornelas, and S.R. Connolly. 2014. Mechanical vulnerability explains size-dependent mortality of reef corals. Ecology Letters, 17: 1008-1015.

2013

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

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

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

Connolly, S.R. and M.A. Kosnik. 2013. Fossil record. Pages 537-544 in Levin, S.A., editor. Encyclopedia of Biodiversity, 2nd edition, Volume 3. (Revised and updated from Connolly 2001.) Academic Press, Waltham, MA, USA.

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

Graham, E.M., A.H. Baird, B.L. Willis, and S.R. Connolly. 2013. Effects of delayed settlement on post-settlement growth and survival of scleractinian coral larvae. Oecologia, 173(2): 431-438.

Graham, E.M., A.H. Baird, S.R. Connolly, M.A. Sewell, and B.L. Willis. 2013. Rapid declines in metabolism explain extended coral larval longevity. Coral Reefs, 32(2): 539-549. (Winner of the 2013 “Best Paper Award” for Coral Reefs)

Hughes, T.P., S.R. Connolly, and S.A. Keith. 2013. Geographic ranges of reef corals (Cnidaria: Anthozoa: Scleractinia) in the Indo-Pacific. Ecology (Data Paper), 94: 1659. Ecological Archives E094-150.

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

Keith, S.A., A.H. Baird, T.P. Hughes, J.S. Madin, and S.R. Connolly. 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, 280(1763): 20130818.

Thibaut, L.M. and S.R. Connolly. 2013. Understanding diversity-stability relationships: towards a unified model of portfolio effects. Ecology Letters, 16: 140-150.

2012

Barbosa, M., S.R. Connolly, M. Hisano, M. Dornelas, and A.E. Magurran. 2012. Fitness consequences of female multiple mating: a direct test of indirect benefits. BMC Evolutionary Biology, 12: 185.

Blowes, S.A. and S.R. Connolly. 2012. Risk-spreading, connectivity, and optimal reserve spacing. Ecological Applications, 22: 311-321.

Bode, M, S.R. Connolly, and J.M. Pandolfi. 2012. Species differences drive non-neutral structure in Pleistocene coral communities. American Naturalist, 180(5): 577-588.

Chan, N.C.S., S.R. Connolly, and B.D. Mapstone. 2012. Effects of sex change on the implications of marine reserves for fisheries. Ecological Applications, 22: 778-791.

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

Connolly, S.R. and L.M. Thibaut. 2012. A comparative analysis of alternative approaches to fitting species abundance models. Journal of Plant Ecology, 5: 32-45.

Figueiredo, J. and S.R. Connolly. 2012. Dispersal-mediated Coexistence under Recruitment Limitation and Displacement Competition. Ecological Modelling, 243: 133-142.

Hobbs, J-P.A., G.P. Jones, P.L. Munday, S.R. Connolly, and M. Srinivasan. 2012. Biogeography and the structure of coral reef fish communities on isolated islands. Journal of Biogeography, 39: 130-139.

Keith, S.A., T.J. Webb, K. Böhning-Gaese, S.R. Connolly, N.K. Dulvy, F. Eigenbrod, K.E. Jones, T. Price, D.W. Redding, I.P.F. Owens, and N.J.B. Isaac. 2012. What is macroecology? Biology Letters, 8: 904-906.

Madin, J.S., M.O. Hoogenboom, and S.R. Connolly. 2012. Integrating physiological and biomechanical drivers of population growth over environmental gradients on coral reefs. Journal of Experimental Biology, 215: 968-976.

Madin, J.S., T.P. Hughes, and S.R. Connolly. 2012. Calcification, storm damage and population resilience of tabular corals under climate change. PLoS ONE, 7(10): e46637.

Malerba, M.E., S.R. Connolly, and K. Heimann. 2012. Nitrate-nitrite dynamics and phytoplankton growth: Formulation and experimental evaluation of a dynamic model. Limnology and Oceanography, 57(5): 1555-1571.

Thibaut, L.M., S.R. Connolly, and H.P.A. Sweatman. 2012. Diversity and stability of herbivorous fishes on coral reefs. Ecology, 93: 891-901.

2011

Cetina-Heredia, P. and S. R. Connolly. 2011. A simple approximation for larval retention around reefs. Coral Reefs, 30: 593-605.

Connolly, S.R. and M. Dornelas. 2011. Fitting and empirical evaluation of models for species abundance distributions. In Magurran, A.E. and B. McGill, editors. Biological diversity: frontiers in measurement and assessment. Oxford University Press, Oxford, UK.

Hisano, M., S.R. Connolly, and W.D. Robbins. 2011. Population growth rates of reef sharks with and without fishing on the Great Barrier Reef: robust estimation with multiple models. PLoS ONE, 6: e25028, doi: 10.1371/journal.pone.0025028.

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

Karlson, R.H., S.R. Connolly, and T.P. Hughes. 2011. Spatial variance in abundance and occupancy of corals across broad geographical scales. Ecology, 92: 1282-1291.

Pandolfi, J.M., S.R. Connolly, D.J. Marshall, and A.L. Cohen. 2011. Projecting coral reef futures under global warming and ocean acidification. Science, 333: 418-422.

2010

Connolly, S.R. and A.H. Baird. 2010. Estimating dispersal potential for marine larvae: dynamic models applied to scleractinian corals. Ecology, 91: 3572-3583.

Penin, L., F. Michonneau, A.H. Baird, S.R. Connolly, M.S. Pratchett, M. Kayal, and M. Adjeroud. 2010. Early post-settlement mortality and the structure of coral assemblages. Marine Ecology Progress Series, 408: 55-64.

Salomon, Y., S.R. Connolly, and L. Bode. 2010. Effects of asymmetric dispersal on the coexistence of competing species. Ecology Letters, 13: 432–441.

2009

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

Connolly, S.R. 2009. Macroecological theory and the analysis of species richness gradients. Pages 279-309 in Witman, J. and K. Roy, editors. Marine Macroecology. University of Chicago Press, Chicago, USA.

Connolly, S.R., M. Dornelas, D.R. Bellwood, and T.P. Hughes. 2009. Testing species-abundance models: a new bootstrap approach applied to Indo-Pacific coral reefs. Ecology, 90: 3138-3149.

Elmhirst, T., S.R. Connolly, and T.P. Hughes. 2009. Connectivity, regime shifts, and the resilience of coral reefs. Coral Reefs, 28: 949–957.

Gotelli, N.J., M.J. Anderson, H.T. Arita, A. Chao, R.K. Colwell, S.R. Connolly, D.J. Currie, R.R. Dunn, G.R. Graves, J.L. Green, J.-A. Grytnes, Y.-H. Jiang, W. Jetz, S.K. Lyons, C.M. McCain, A.E. Magurran, C. Rahbek, T.F.L.V.B. Rangel, J. Soberón, C.O. Webb, and M.R. Willig. 2009. Patterns and causes of species richness: a general simulation model for macroecology. Ecology Letters, 12: 873–886.

Hoogenboom, M.O. and S.R. Connolly. 2009. Defining fundamental niche dimensions of corals: synergistic effects of colony size, light and flow. Ecology, 90: 767-780.

Hoogenboom, M.O., S.R. Connolly, and K.R.N. Anthony. 2009. Effects of photo acclimation on the light niche of corals: a process-based approach. Marine Biology, 156: 2493–2503.

2008

Belmaker, J., Y. Ziv, N. Shashar, and S.R. Connolly. 2008. Regional variation in the hierarchical partitioning of alpha and beta diversity in coral-dwelling fishes. Ecology, 89: 2829-2840.

Dornelas, M. and S.R. Connolly. 2008. Multiple modes in a coral species abundance distribution. Ecology Letters, 11: 1008–1016.

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

Hoogenboom, M.O., S.R. Connolly, and K.R.N. Anthony. 2008. Interactions between morphological and physiological plasticity optimize energy acquisition in corals. Ecology, 89: 1144-1154.

Madin, J.S., M.J. O’Donnell, and S.R. Connolly. 2008. Climate-mediated changes to post-disturbance coral assemblages. Biology Letters, 4: 490–493.

2007

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

2006

Dornelas, M.A., S.R. Connolly, and T.P. Hughes. 2006. Coral reef diversity refutes the neutral theory of biodiversity. Nature, 440: 80-82.

Hoogenboom, M.O., K.R.N. Anthony, and S.R. Connolly. 2006. Energetic costs of photoinhibition in corals. Marine Ecology Progress Series, 313: 1-12.

Madin, J.S. and S.R. Connolly. 2006. Ecological consequences of major hydrodynamic disturbances on coral reefs. Nature, 444: 477-480.

Madin, J.S., K.P. Black, and S.R. Connolly. 2006. Scaling water motion on coral reefs: from regional to organismal scales. Coral Reefs, 25: 635-644.

Robbins, W., M. Hisano, S.R. Connolly, and J.H. Choat. 2006. Ongoing collapse of coral reef shark populations. Current Biology, 16: 2314-2319.

2005

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

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

Connolly, S.R. 2005. Process-based models of species distributions and the mid-domain effect. American Naturalist, 166: 1-11.

Connolly, S.R., T.P. Hughes, D.R. Bellwood, and R.H. Karlson. 2005. Community structure of corals and reef fishes at multiple scales. Science, 309: 1363-1365.

2004

Anthony, K.R.N. and S.R. Connolly. 2004. Environmental limits to growth: physiological niche boundaries of corals along turbidity-light gradients. Oecologia, 141: 373-384.

2003

Connolly, S.R. and S. Muko. 2003. Space pre-emption, size-dependent competition, and the coexistence of clonal growth forms. Ecology, 84: 2979-2988.

Connolly, S.R., D.R. Bellwood, and T.P. Hughes. 2003. Indo-Pacific biodiversity of coral reefs: deviations from a mid-domain model. Ecology, 84: 2178-2190.

Hughes, T.P., A. Baird, D.R. Bellwood, M. Card, S.R. Connolly, et al. 2003. Climate change, human impacts, and the resilience of coral reefs. Science, 301: 929-933.

2002

Anthony, K.R.N., S.R. Connolly, and B.L. Willis. 2002. Comparative analysis of energy allocation to tissue and skeletal growth in corals. Limnology and Oceanography, 47: 1417-1429.

Connolly, S.R. and A.I. Miller. 2002. Global Ordovician faunal transitions in the marine benthos: ultimate causes. Paleobiology, 28: 26-40.

2001

Connolly, S.R. and A.I. Miller. 2001. Global Ordovician faunal transitions in the marine benthos: proximate causes. Paleobiology, 27: 779-795.

Connolly, S.R., B.A. Menge, and J. Roughgarden. 2001. A latitudinal gradient in recruitment of intertidal invertebrates in the northeast Pacific Ocean. Ecology, 82: 1799-1813.

1999

Connolly, S.R. and J. Roughgarden. 1999. Theory of marine communities: competition, predation, and recruitment-dependent interaction strength. Ecological Monographs, 66: 277-296.

1998

Connolly, S.R. and J. Roughgarden. 1998. A latitudinal gradient in Northeast Pacific intertidal community structure: evidence for an oceanographically-based synthesis of marine community theory. The American Naturalist, 151: 311-326.