2018

[61] Graham, NAJ, Wilson SK, Carr P, Hoey AS, Jennings S, MacNeil, MA 2018. Seabirds fuel coral reef productivity and functioning in the absence of invasive rats. Nature 559:250-253.  link  video podcast

[60] Cinner JE, Huchery C, Maire E, MacNeil, MA, Graham, NAJ, et al. 2018. Marine reserves moderate, but not ameliorate human impacts on coral reefs. Proceedings of the National Academy of Sciences USA 75:81-102.

[59] Emslie MJ, Cheal AJ, MacNeil, MA, Miller IR, Sweatman PA. 2018. Reef fish communities are spooked by scuba surveys and may take hours to recover. PeerJ https://doi.org/10.7717/peerj.4886.

[58] Wilson S.K., Graham, N.A.J., Holmes, T.H., MacNeil, M.A., Ryan, N.M. 2018. Visual versus video methods for estimating reef fish biomass. Ecological Indicators 85:146-152.

[57] Hempson, T.N., Graham, N.A.J., MacNeil, M.A., Hoey, A.S., Wilson, S.K. 2018. Ecosystem regime shifts disrupt trophic structure. Ecological Applications 28:191-200.

[56] Hempson, T.N., Graham, N.A.J., MacNeil, M.A., Hoey, A.S., Almany, G.R. 2018. Mesopredator trophodynamics on thermally stressed coral reefs. Coral Reefs 37:135-144.

[55] Hempson, T.N., Graham, N.A.J., MacNeil, M.A., Bodin, N., Wilson, S.K., 2018. Regime shifts shorten food chains for mesopredators with potential sublethal effects. Functional Ecology 32:820-830.

[54] Steeves, H., McMeans, B., Field, C., Stewart, C., Arts, M.T., Fisk, A.T., Lydersen, C., Kovacs, K.M., MacNeil, M.A.. 2018. Non-parametric spatio-temporal variability in the fatty-acid profiles among Greenland Sharks. Journal of the Marine Biological Association of the UK 98:627-633.

2017

[53] Graham, N.A.J., McClanahan, T.R., MacNeil, M.A., Wilson, S.K., Cinner, J.E., Hutchery, C., Holmes, T.H. 2017. Human Disruption of Coral Reef Trophic Structure. Current Biology 27: 231–236.

[52] MacNeil, M.A., Chong-Seng, K.M., Pratchett, D.J., Thompson, C., Messmer, V., Pratchett, M.S. 2017. Age and growth of an outbreaking Acanthaster cf. solaris population on the Great Barrier Reef. Diversity 9.1: 18.

[51] Cheal, A.J., MacNeil, M.A., Emslie, M.J., Sweatman, H.. 2017. The threat to coral reefs from more intense cyclones under climate change. Global Change Biology 23:1511-1524.

[50] Hempsen T.N., Graham, N.A.J., MacNeil, M.A., Williamson, D.H., Jones, G.P., Almany, G.R. 2017. Coral reef mesopredators switch prey, shortening food chains, in response to habitat degradation. Ecology & Evoloution 7:2626-2635.

2016

[49] Mellin, C., Lurgi, M., Matthews, S., MacNeil, M.A., Caley, M.J., Bax, N., Przeslawski, R., Fordham, D. 2016. Biotic interactions mediate marine invasions under climate change. Biological Conservation 204: 459-467.

[48] MacNeil, M.A., Mellin, C., Pratchett, M., Hoey, J., {\it et al.}. 2016. Joint estimation of crown of thorns ({\it Acanthaster plancii}) densities on the Great Barrier Reef. PeerJ 4:e2310; DOI 10.7717/peerj.2310.

[47] Cinner, J.E., Hutchery, C., MacNeil, M.A., Graham, N.A.J., McClanahan, T.R. et al. 2016. Bright spots among the world’s coral reefs. Nature 535:416–419.

[46] Mellin C., MacNeil, M.A., Cheal A.J., Emslie, M.J., Caley, M.J. 2016. Marine protected areas increase resilience among coral reef communities. Ecology Letters 19(6): 629-637.

2015

[45] MacNeil, M.A., Graham, N.A.J., Cinner, J.E., Wilson, S.K., Williams, I.D., Maina, J., Newman, S., Friedlander, A.M., Jupiter, S., Polunin, N.V.C., McClanahan, T.R. 2015. Recovery potential of the world’s coral reef fishes. Nature 520:341-344.

[44] Graham, N.A.J., Jennings, S., MacNeil, M.A., Mouillot, D., Wilson, S.K. 2015. Predicting climate driven regime shifts versus rebound potential in coral reefs. Nature 518:94-97. pdf

[43] Hussey, N.E., MacNeil, M.A., Siple, M.C., Popp, B.N., Dudley, S.F.J., Fisk, A.T. 2015. Expanded trophic structure and limited functional redundancy among a large shark community. Food Webs, 4:1-7. pdf

[42] Emslie, M.J., Logan, M., Williamson, D.H., Ayling, T., MacNeil, M.A., Ceccarelli, D., Cheal, A.J., Evans, R.D., Johns, K.A., Jonker, M.J., Miller, I.R., Osborne, K., Russ, G.R., Sweatman, H.P.A. 2015. Reserve network performance following re-zoning on the Great Barrier Reef: expectations versus outcomes. Current Biology, 25:983-992. pdf

[41] McClanahan, T.R., Graham, N.A.J., MacNeil, M.A., and Cinner, J.E. 2015. Biomass-based management of multi species coral reef fisheries. Conservation Biology, 29(2):409-417. pdf

2014

[40] MacNeil, M.A. and Connolly, S.R. 2014. Multi-scale patterns and processes in reef fish abundance. In Mora, C. Ed. Ecology of fishes on coral reefs: the functioning of an ecosystem in a changing world. Cambridge University Press, Cambridge, UK. link

[39] Connolly, S.R., MacNeil, M.A., Caley, M.J., Cripps, E., and et al. 2014. Commonness and rarity in the marine biosphere. Proceedings of the National Academy of Sciences USA doi:10.1073/pnas.1406664111. pdf

[38] Burgess, G.H., Bruce, B.D., Cailliet, G.M., Goldman, K.J., Grubbs, R.D., Lowe, C.G., MacNeil, M.A., Mollet, H.F., O’Sullivan, J.B., and Weng, K.C. 2014. A re-evaluation of the size of the white shark (Carcharodon carcharias) population off California, USA. PLoS ONE 9(6):e98078. pdf

[37] Hussey, N.E., MacNeil, M.A., McMeans, B.C., Olin, J.A., Dudley, S.F.J., Cliff, G., Wintner, S.P., Fennessy, S.T., and Fisk, A.T. 2014. Rescaling the trophic structure of marine food webs. Ecology Letters 17(2) 239-250. pdf Corrigendum

2013

[36] Mengersen, K., Caley, M.J., and MacNeil, M.A. 2013. The Potential for Meta-Analysis to Support Decision Analysis in Ecology. Research Synthesis Methods, 6:111–121 pdf

[35] Cinner, J.E., MacNeil, M.A., Basurto, X. and Gelcich S. 2013. Looking beyond the fisheries crisis: Cumulative learning from small-scale fisheries through diagnostic approaches. Global Environmental Change 23(6) 1359-1365. pdf

[34] MacNeil, M.A. 2013. The politics, science, and policy of reference points for resource management. Environmental Conservation 40(04) 297-301. pdf

[33] MacNeil, M.A. and Cinner, J.E. 2013 Hierarchical livelihood outcomes among co-managed fisheries. Global Environmental Change 23(6) 1393-1401. pdf

[32] Holt, B.G., Rioja Nieto, R., Lupton, J., Rahbek, C., and MacNeil, M.A. 2013. Assessing the value of volunteer survey protocols for biodiversity studies: a case study with Caribbean fish assemblages. Methods in Ecology and Evolution 4 383–392.pdf

[31] Cheal, A.J., Emslie, M., MacNeil, M.A., Miller, I., and Sweatman, H. 2013. Spatial variation in the functional characteristics of herbivorous fish communities and the resilience of coral reefs. Ecological Applications 23(1) 174-188.pdf

2012

[30] McClanahan, T.R, Donner, S.D., Maynard, J.A., MacNeil, M.A., Graham, N.A.J., Maina, J.M., Baker, A.C., Alemu, J. B., Beger, M., Campbell, S.J., Darling, E.S., Eakin, C.M., Heron, S.F., Jupiter, S.D., Lundquist, C.J., McLeod, E., Mumby, P.J., Paddack, M.J., Selig, E.R. van Woesik, R. 2012. Evidence-basedPrioritizing key resilience assessments indicators to support coral reef management in a changing climate. PLoS ONE 7(8): e42884. doi:10.1371/journal.pone.0042884.pdf

[29] Cinner, J.E., Graham, N.A.J., Huchery, C., and MacNeil, M.A. 2012. Global Impacts of Local Human Population Density and Distance to Markets on the Condition of Coral Reef Fisheries. Conservation Biology 3:453-458. pdf

[28] Cinner, J.E., McClanahan, T.R., MacNeil, M.A., Graham, N.A.J., Daw, T., Mukminin, A., Feary, D., Rabearisoa, A., Wamukota, A., Jiddawi, N., Campbell, S., Baird, A., Januchowski- Hartley, F., Hamed, S., Lahari, R., Morove, T., and Kuange, K. 2012. Co-management of coral reef social-ecological systems. Proceedings of the National Academy of Sciences USA 109(14):5219-5222. pdf

[27] MacNeil, M.A., McMeans, B.C., Hussey, N., Treble, M., Vecsei, P., Skomal, G.B., Svavarsson, J., Kovacs, K., Lyderson, C., Ramsey, M., and Fisk, A.T. 2012. Biology of the Greenland shark
Somniosus microcephalus Bloch and Schneider, 1801. Journal of Fish Biology 80:991-1018. pdf

[26] Hussey, N.E., MacNeil, M.A., Olin, J.A., McMeans, B.C., Kinney, M.J., Chapman, D.D. and Fisk, A.T. 2012. Stable isotopes and elasmobranchs: tissue types, methods, applications and assumptions. Journal of Fish Biology 80:1449-1484. pdf

[25] Olin, J.A., MacNeil, M.A., Rush, S.A., and Fisk, A.T. 2012. Season as opposed to body size drives variation in stable isotope ratios within estuarine consumer species from two riverine systems. Estuaries and Coasts 35:811-820. pdf

[24] Mellin, C., Parrott, L., Andrefouet, S., Bradshaw, C.A.J., MacNeil, M.A., and Caley, M.J. 2012. Multi-scale marine biodiversity patterns inferred efficiently from habitat image processing. Journal of Animal Ecology 22(3) 792-803.pdf

2011

[23] McClanahan, T.R, Graham, N.A.J., MacNeil, M.A., Muthiga, N.A., Cinner, J.E., Bruggemann, J.H., and Wilson, S.K. 2011. Critical thresholds and tangible targets for ecosystem-based management of coral reef fisheries. PNAS doi:10.1073/pnas.1106861108. pdf

[22] Graham, N.A.J.; Chabanet, P., Evans, R.D., Jennings, S., Letourneur, Y., MacNeil, M.A., McClanahan,T.R., Ohman,M.C., Polunin,N.V.C., and Wilson,S.K. 2011. Extinction risk in coral reef fishes. Ecology Letters 14: 341-348. pdf

2010

[21] Dennis, C., MacNeil, M.A., Rosati, J., Pitcher, T. and Fisk, A.T. 2010. Diet discrimination factors are inversely related to δ15N and δ13C values of food for fish under controlled conditions. Rapid Communications in Mass Spectrometry 24: 3515-3520. pdf

[20] MacNeil, M.A., Graham, N.A.J., Cinner, J.E., Loring, P.A., Jennings, S., Dulvy, N.K., Fisk,A.T., Polunin, N.V.C., and McClanahan, T.R. 2010. Transitional states in marine fisheries: adapting to predicted global change. Philosophical Transactions of the Royal Society 365: 3753-3763. pdf

[19] Hussey, N.E., MacNeil, M.A., and Fisk, A.T. 2010. The requirement for accurate diet-tissue discrimination factors for interpreting stable isotopes in sharks. Comment on ‘Stable isotope dynamics in elasmobranch fishes.’ Hydrobiologia 654(1): 1-5. pdf

[18] Cheal, A.J., MacNeil, M.A., Cripps, E., Emslie, M., Jonker, M., Shaffelke, B., and Sweatman, H. 2010. First evidence of a coral-macroalgal phase shift on the Great Barrier Reef highlights the importance of herbivorous fishes. Coral Reefs 29: 1005-1015. pdf

[17] MacNeil, M.A. and Graham, N.A.J. 2010. Enabling Coral-reef management in a changing climate through predictive Bayesian meta-analysis of large-scale disturbance. Global Ecology and Biogeography 19: 412-421. pdf

2009

[16] Hussey, N.E., Wintner, S.P., Dudley, S.F.J., Cocks, D.T., Cliff, G., and MacNeil, M.A.. 2009. Maternal investment and size-specific reproductive output in carcharhinid sharks. Journal of Animal Ecology 79: 184-193. pdf

[15] Dennard, S., MacNeil, M.A., Treble, M., Campana, S.E., and Fisk, A.T. 2009. Hierarchical Analysis of a Remote, Arctic, Artisanal Longline Fishery. ICES Journal of Marine Science 67: 41-51. pdf

[14] MacNeil, M.A., Carlson, J.K. and Beerkircher, L.R. 2009. Shark depredation rates in pelagic longline fisheries: a case study from the Northwest Atlantic. ICES Journal of Marine Science 66: 708-719. pdf

[13] MacNeil, M.A., Graham, N.A.J., Polunin, N.V.C., Kulbicki, M., Galzin, R., Harmelin-Vivien, M. and Rushton, S.P. 2009. Hierarchical drivers of reef-fish metacommunity structure. Ecology 90(1): 252-264. pdf

[12] Fisk, A.T., Sash, K., Maerz, J., Palmer, W., Carroll, J.P., and MacNeil, M.A. 2009. Metabolic turnover rates of carbon and nitrogen stable isotopes in captive juvenile snakes. Rapid Communi- cations in Mass Spectrometry 23: 1-8. pdf

2008

[11] MacNeil, M.A., Graham, N.A.J., Conroy, M.J., Fonnesbeck, C.J., Polunin, N.V.C., Rushton, S.P., Chabanet, P., and McClanahan, T.R. 2008. Detection heterogeniety in underwater visual census data. Journal of Fish Biology 73: 1748-1763. pdf

[10] MacNeil, M.A., Tyler, E., Fonnesbeck, C., Rushton, S.P., and Conroy, M.J. 2008. Accounting for Detectability in Reef-Fish Biodiversity Estimates. Marine Ecology Progress Series 367: 249-260. pdf

[9] Graham, N.A.J, McClanahan, T.R., MacNeil, M.A., Wilson, S.K., Polunin, N.V.C., Jennings, S. Letourner, Y., Galzin, R., Chabanet, P., Bigot, L., Spalding, M.D., Ohman, M.C., Garpe, K.C., Clark, S. Edwards, A.J., and Sheppard, C.R.C. 2008. Climate warming and the Ocean-scale integrity of coral reef ecosystems. PLoS ONE 3(8): 1-9. pdf

[8] MacNeil, M.A. 2008. Making empirical progress in observational ecology. Environmental Conservation 35(2): 1-4. pdf

[7] Overmyer, J., MacNeil, M.A., and Fisk, A.T. 2008. Stable Isotope Turnover in the Black Fly, Simulium vittatum IS-7. Rapid Communications in Mass Spectrometry 22: 694-700. pdf

[6] Mill, A.C., Sweeting, C.J., Barnes, C., Al-Habsi, S., and MacNeil, M.A. 2008. Mass-spectrometer bias in stable isotope ecology. Limnology and Oceanography: Methods 6: 34-39. pdf

[5] MacNeil, M.A., Fonnesbeck, C.J. and McClanahan, T.R. 2008. Occupancy models for estimating the size of reef fish communities. Proceedings of the 11th International Coral Reef Symposium. pdf

2007

[4] McClanahan, T.R., Graham, A.J, Calnan, J. and MacNeil, M.A. 2007. Towards pristine biomass: reef fish recovery in coral reef marine protected areas. Ecological Applications 17(4): 1055-1067. pdf

2006

[3] MacNeil, M.A., K.G. Drouillard, and Fisk, A.T. 2006. Variable uptake and elimination of stable nitrogen isotopes. Canadian Journal of Fisheries and Aquatic Sciences 63: 345-353. pdf

2005

[2] MacNeil, M.A., G.B. Skomal, and Fisk, A.T. 2005. Stable isotopes from multiple tissues reveal diet switching in sharks. Marine Ecology Progress Series 302: 199-206. pdf

2002

[1] MacNeil, M.A. and S.E. Campana. 2002. Comparison of whole and sectioned vertebrae for determining the age of young blue shark (Prionace glauca). Journal of Northwest Atlantic Fisheries Science 30: 77-82. pdf