Journal Articles
[1] Abrego, D, van Oppen, MJH and Willis, BL (2009). Highly infectious symbiont dominates initial uptake in coral juveniles. Molecular Ecology 18(16): 3518-3531.
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[2] Abrego, D, van Oppen, MJH and Willis, BL (2009). Onset of algal endosymbiont specificity varies among closely related species of Acropora corals during early ontogeny. Molecular Ecology 18(16): 3532-3543.
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[3] Adjeroud, M, Michonneau, F, Edmunds, P, Chancerelle, Y, de Loma, T, Penin, L, Thibaut, L, Vidal-Dupiol, J, Salvat, B and Galzin, R (2009). Recurrent disturbances, recovery trajectories, and resilience of coral assemblages on a South Central Pacific reef. Coral Reefs 28(3): 775-780.
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[4] Ainsworth, TD 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): 289-296.
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[5] Almany, G, Connolly, S, Heath, D, Hogan, J, Jones, G, McCook, L, Mills, M, Pressey, R and Williamson, D (2009). Connectivity, biodiversity conservation and the design of marine reserve networks for coral reefs. Coral Reefs 28(2): 339-351.
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[6] Almany, GR, De Arruda, MP, Arthofer, W, Atallah, ZK, Beissinger, SR, Berumen, ML, Bogdanowicz, SM, Brown, SD, Bruford, MW, Burdine, C, Busch, JW, Campbell, NR, Carey, D, Carstens, BC, Chu, KH, Cubeta, MA, Cuda, JP, Cui, ZX, Datnoff, LE, Davila, JA, Davis, ES, Davis, RM, Diekmann, OE, Eizirik, E, Fargallo, JA, Fernandes, F, Fukuda, H, Gale, LR, Gallagher, E, Gao, YQ, Girard, P, Godhe, A, Goncalves, EC, Gouveia, L, Grajczyk, AM, Grose, MJ, Gu, ZF, Hallden, C, Harnstrom, K, Hemmingsen, AH, Holmes, G, Huang, CH, Huang, CC, Hudman, SP, Jones, GP, Kanetis, L, Karunasagar, I, Keyghobadi, N, Klosterman, SJ, Klug, PE, Koch, J, Koopman, MM, Koppler, K, Koshimizu, E, Krumbock, S, Kubisiak, T, Landis, JB, Lasta, ML, Lee, CY, Li, QQ, Li, SH, Lin, RC, Liu, M, Liu, N, Liu, WC, Liu, Y, Loiseau, A, Luan, WS, Maruthachalam, KK, McCormick, HM, Mellick, R, Monnahan, PJ, Morielle-Versute, E, Murray, TE, Narum, SR, Neufeld, K, de Nova, PJG, Ojiambo, PS, Okamoto, N, Othman, AS, Overholt, WA, Pardini, R, Paterson, IG, Patty, OA, Paxton, RJ, Planes, S, Porter, C, Pratchett, MS, Puttker, T, Rasic, G, Rasool, B, Rey, O, Riegler, M, Riehl, C, Roberts, JMK, Roberts, PD, Rochel, E, Roe, KJ, Rossetto, M, Ruzzante, DE, Sakamoto, T, Saravanan, V, Sarturi, CR, Schmidt, A, Schneider, MPC, Schuler, H, Serb, JM, Serrao, ETA, Shi, YH, Silva, A, Sin, YW, Sommer, S, Stauffer, C, Strussmann, CA, Subbarao, KV, Syms, C, Tan, F, Tejedor, ED, Thorrold, SR, Trigiano, RN, Trucco, MI, Tsuchiya-Jerep, MTN, Vergara, P, van de Vliet, MS, Wadl, PA, Wang, AM, Wang, HX, Wang, RX, Wang, XW, Wang, Y, Weeks, AR, Wei, FW, Werner, WJ, Wiley, EO, Williams, DA, Wilkins, RJ, Wisely, SM, With, KA, Wu, DH, Yao, CT, Yau, C, Yeap, BK, Zhai, BP, Zhan, XJ, Zhang, GY, Zhang, SY, Zhao, R, Zhu, LF and Mol Ecol, R (2009). Permanent Genetic Resources added to Molecular Ecology Resources Database 1 May 2009-31 July 2009. Molecular Ecology Resources 9(6): 1460-1466.
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[7] Anthony, KRN, Hoogenboom, MO, Maynard, JA, Grottoli, AG and Middlebrook, R (2009). Energetics approach to predicting mortality risk from environmental stress: A case study of coral bleaching. Functional Ecology 23(3): 539-550.
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[8] Baird, AH, Bhagooli, R, Ralph, PJ and Takahashi, S (2009). Coral bleaching: the role of the host. Trends in Ecology & Evolution 24(1): 16-20.
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[9] Baird, AH, Bhalla, RS, Kerr, AM, Pelkey, NW and Srinivas, V (2009). Do mangroves provide an effective barrier to storm surges? Proceedings of the National Academy of Sciences 106(40): E111.
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[10] Baird, AH and Guest, JR (2009). Spawning synchrony in scleractinian corals: Comment on Mangubhai & Harrison (2008). Marine Ecology Progress Series 374: 301-304.
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[11] Baird, AH, Guest, JR and Willis, BL (2009). Systematic and biogeographical patterns in the reproductive biology of scleractinian corals. Annual Review of Ecology Evolution and Systematics 40: 551-571.
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[12] Ban, N (2009). Minimum data requirements for designing a set of marine protected areas, using commonly available abiotic and biotic datasets. Biodiversity and Conservation 18(7): 1829-1845.
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[13] Ban, NC, Caldwell, IR, Green, TL, Morgan, SK, O'Donnell, K, Selgrath, C., J, Lynham, J, Costello, C, Gaines, SD, Grafton, RQ and Prince, J (2009). Diverse fisheries require diverse solutions. Science 323(5912): 338-339.
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[14] Ban, NC, Hansen, GJA, Jones, M and Vincent, ACJ (2009). Systematic marine conservation planning in data-poor regions: Socioeconomic data is essential. Marine Policy 33(5): 794-800.
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[15] Ban, NC, Picard, CR and Vincent, ACJ (2009). Comparing and integrating community-based and science-based approaches to prioritizing marine areas for protection. Conservation Biology 23(4): 899-910.
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[16] Ban, NC and Vincent, ACJ (2009). Beyond marine reserves: Exploring the approach of selecting areas where fishing is permitted, rather than prohibited. PLoS ONE 4(7): e6258.
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[17] Bartlett, CY, Pakoa, K and Manua, C (2009). Marine reserve phenomenon in the Pacific Islands. Marine Policy 33(4): 673-678.
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[18] Bay, LK, Ulstrup, KE, Nielsen, HB, Jarmer, H, Goffard, N, Willis, BL, Miller, DJ and Van Oppen, MJH (2009). Microarray analysis reveals transcriptional plasticity in the reef building coral Acropora millepora. Molecular Ecology 18(14): 3062-3075.
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[19] Bellwood, DR and Meyer, CP (2009). Endemism and evolution in the Coral Triangle: A call for clarity. Journal of Biogeography 36(10): 2011-2012.
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[20] Bellwood, DR and Meyer, CP (2009). Searching for heat in a marine biodiversity hotspot. Journal of Biogeography 34(4): 569-576.
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[21] Bernal, JP, Lachniet, M, McCulloch, MT, Mortimer, GE, Morales, P and Cienfuegos, E (2009). Holocene climate variability in Southwestern Mexico from speleothem delta O-18 and Mg/Ca. Geochimica et Cosmochimica Acta 73(13): A112.
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[22] Berumen, ML and Almany, GR (2009). External tagging does not affect the feeding behavior of a coral reef fish, Chaetodon vagabundus (Pisces: Chaetodontidae). Environmental Biology of Fishes 86(4): 447-450.
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[23] Bonaldo, R and Bellwood, D (2009). Dynamics of parrotfish grazing scars. Marine Biology 156(4): 771-777.
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[24] Bonin, M, Srinivasan, M, Almany, G and Jones, G (2009). Interactive effects of interspecific competition and microhabitat on early post-settlement survival in a coral reef fish. Coral Reefs 28(1): 265-274.
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[25] Bonin, MC, Munday, PL, McCormick, MI, Srinivasan, M and Jones, GP (2009). Coral-dwelling fishes resistant to bleaching but not to mortality of host corals. Marine Ecology Progress Series 394: 215-222.
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[26] Botsford, L, White, J, Coffroth, M, Paris, C, Planes, S, Shearer, T, Thorrold, S and Jones, G (2009). Connectivity and resilience of coral reef metapopulations in marine protected areas: Matching empirical efforts to predictive needs. Coral Reefs 28(2): 327-337.
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[27] Bottrill, MC, Joseph, LN, Carwardine, J, Bode, M, Cook, C, Game, ET, Grantham, H, Kark, S, Linke, S, McDonald-Madden, E, Pressey, RL, Walker, S, Wilson, KA and Possingham, HP (2009). Finite conservation funds mean triage is unavoidable. Trends in Ecology & Evolution 24(4): 183-184.
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[28] Brewer, TD, Cinner, JE, Green, A and Pandolfi, JM (2009). Thresholds and multiple scale interaction of environment, resource use, and market proximity on reef fishery resources in the Solomon Islands. Biological Conservation 142(8): 1797-1807.
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[29] Brierley, AS and Kingsford, MJ (2009). Impacts of climate change on marine organisms and ecosystems. Current Biology 19(14): R602-R614.
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[30] Buray, N, Mourier, J, Planes, S and Clua, E (2009). Underwater photo-identification of sicklefin lemon sharks, Negaprion acutidens, at Moorea (French Polynesia). Cybium 33(1): 21-27.
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[31] Burgess, S, McCulloch, M, Mortimer, G and Ward, T (2009). Structure and growth rates of the high-latitude coral: Plesiastrea versipora. Coral Reefs 28(4): 1005-1015.
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[32] Buston, PM, Fauvelot, C, Wong, MYL and Planes, S (2009). Genetic relatedness in groups of the humbug damselfish Dascyllus aruanus: Small, similar-sized individuals may be close kin. Molecular Ecology 18(22): 4707-4715.
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[33] Cantin, N, van Oppen, M, Willis, B, Mieog, J and Negri, A (2009). Juvenile corals can acquire more carbon from high-performance algal symbionts. Coral Reefs 28(2): 405-414.
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[34] Carpenter, SR, Folke, C, Scheffer, M and Westley, F (2009). Resilience: Accounting for the noncomputable. Ecology and Society 14(1).
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[35] Carter, AB, Williams, AJ and Russ, GR (2009). Increased accuracy of batch fecundity estimates using oocyte stage ratios in Plectropomus leopardus. Journal of Fish Biology 75(3): 716-722.
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[36] Chlaida, M, Laurent, V, Kifani, S, Benazzou, T, Jaziri, H and Planes, S (2009). Evidence of a genetic cline for Sardina pilchardus along the Northwest African coast. Ices Journal of Marine Science 66(2): 264-271.
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[37] Cinner, J, Fuentes, M and Randriamahazo, H (2009). Exploring social resilience in Madagascar's marine protected areas. Ecology and Society 14(1).
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[38] Cinner, JE (2009). Migration and coastal resource use in Papua New Guinea. Ocean & Coastal Management 52(8): 411-416.
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[39] Cinner, JE, Daw, T and McClanahan, TR (2009). Socioeconomic factors that affect artisanal fishers' readiness to exit a declining fishery. Conservation Biology 23(1): 124-130.
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[40] Cinner, JE, McClanahan, TR, Daw, TM, Graham, NAJ, Maina, J, Wilson, SK and Hughes, TP (2009). Linking social and ecological systems to sustain coral reef fisheries. Current Biology 19(3): 206-212.
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[41] Cinner, JE, McClanahan, TR, Graham, NAJ, Pratchett, MS, Wilson, SK and Raina, J-B (2009). Gear-based fisheries management as a potential adaptive response to climate change and coral mortality. Journal of Applied Ecology 46: 724-732.
[42] Cinner, JE, Wamukota, A, Randriamahazo, H and Rabearisoa, A (2009). Toward institutions for community-based management of inshore marine resources in the Western Indian Ocean. Marine Policy 33(3): 489-496.
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[43] Clarke, LM, Walther, BD, Munch, SB, Thorrold, SR and Conover, DO (2009). Chemical signatures in the otoliths of a coastal marine fish, Menidia menidia, from the northeastern United States: Spatial and temporal differences. Marine Ecology-Progress Series 384: 261-271.
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[44] Coker, DJ, Pratchett, MS and Munday, PL (2009). Coral bleaching and habitat degradation increase susceptibility to predation for coral-dwelling fishes. Behavioral Ecology 20(6): 1204-1210.
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[45] Cole, A, Chong Seng, K, Pratchett, M and Jones, G (2009). Coral-feeding fishes slow progression of black-band disease. Coral Reefs 28(4): 965.
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[46] Cole, A, Pratchett, M and Jones, G (2009). Coral-feeding wrasse scars massive Porites colonies. Coral Reefs 28(1): 207.
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[47] Cole, AJ, Pratchett, MS and Jones, GP (2009). Effects of coral bleaching on the feeding response of two species of coral-feeding fish. Journal of Experimental Marine Biology and Ecology 373(1): 11-15.
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[48] Connolly, SR, Dornelas, M, Bellwood, DR and Hughes, TP (2009). Testing species abundance models: A new bootstrap approach applied to Indo-Pacific coral reefs. Ecology 90(11): 3138-3149.
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[49] Cooper, TF, Gilmour, JP and Fabricius, KE (2009). Bioindicators of changes in water quality on coral reefs: Review and recommendations for monitoring programmes. Coral Reefs 28(3): 589-606.
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[50] Cooper, TF and Ulstrup, KE (2009). Mesoscale variation in the photophysiology of the reef building coral Pocillopora damicornis along an environmental gradient. Estuarine Coastal and Shelf Science 83(2): 186-196.
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[51] Cowman, PF, Bellwood, DR and van Herwerden, L (2009). Dating the evolutionary origins of wrasse lineages (Labridae) and the rise of trophic novelty on coral reefs. Molecular Phylogenetics and Evolution 52(3): 621-631.
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[52] Csaszar, NBM, Seneca, FO and van Oppen, MJH (2009). Variation in antioxidant gene expression in the scleractinian coral Acropora millepora under laboratory thermal stress. Marine Ecology Progress Series 392: 93-102.
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[53] Cvitanovic, C and Bellwood, D (2009). Local variation in herbivore feeding activity on an inshore reef of the Great Barrier Reef. Coral Reefs 28(1): 127-133.
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[54] de Freitas, DM, Kininmonth, S and Woodley, S (2009). Linking science and management in the adoption of sensor network technology in the Great Barrier Reef coast, Australia. Computers, Environment and Urban Systems 33(2): 111-121.
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[55] De Freitas, DM and Tagliani, PRA (2009). The use of GIS for the integration of traditional and scientific knowledge in supporting artisanal fisheries management in southern Brazil. Journal of Environmental Management 90(6): 2071-2080.
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[56] De'ath, G, Lough, JM and Fabricius, KE (2009). Declining coral calcification on the Great Barrier Reef. Science 323(5910): 116-119.
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[57] Diaz-Pulido, G, McCook, LJ, Dove, S, Berkelmans, R, Roff, G, Kline, DI, Weeks, S, Evans, RD, Williamson, DH and Hoegh-Guldberg, O (2009). Doom and boom on a resilient reef: Climate change, algal overgrowth and coral recovery. PLoS ONE 4(4): e5239.
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[58] Dixson, DL, Munday, PL and Jones, GP (2009). Ocean acidification disrupts the innate ability of fish to detect predator olfactory cues. Ecology Letters 13(1): 68-75.
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[59] Donelson, JM, Munday, PL and McCormick, MI (2009). Parental effects on offspring life histories: When are they important? Biology Letters 5(2): 262-265.
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[60] Dornelas, M, Moonen, AC, Magurran, AE and Barberi, P (2009). Species abundance distributions reveal environmental heterogeneity in modified landscapes. Journal of Applied Ecology 46(3): 666-672.
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[61] Dunn, SR and Weis, VM (2009). Apoptosis as a post-phagocytic winnowing mechanism in a coral-dinoflagellate mutualism. Environmental Microbiology 11(1): 268-276.
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[62] Durieux, EDH, Meekan, MG, Ponton, D and Vigliola, L (2009). Temperature, selective mortality and early growth in the short-lived clupeid Spratelloides gracilis. Journal of Fish Biology 74(4): 921-938.
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[63] Dutton, A, Bard, E, Antonioli, F, Esat, TM, Lambeck, K and McCulloch, MT (2009). Phasing and amplitude of sea-level and climate change during the penultimate interglacial. Nature Geoscience 2(5): 355-359.
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[64] Elliot, M, Welsh, K, Chilcott, C, McCulloch, M, Chappell, J and Ayling, B (2009). Profiles of trace elements and stable isotopes derived from giant long-lived Tridacna gigas bivalves: Potential applications in paleoclimate studies. Palaeogeography Palaeoclimatology Palaeoecology 280(1-2): 132-142.
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[65] Elmhirst, T, Connolly, S and Hughes, T (2009). Connectivity, regime shifts and the resilience of coral reefs. Coral Reefs 28(4): 949-957.
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[66] Fauvelot, C, Smith-Keune, C, Jerry, DR, Buston, PM and Planes, S (2009). Isolation and characterization of 16 microsatellite loci in the humbug damselfish, Dascyllus aruanus (family Pomacentridae). Molecular Ecology Resources 9(2): 651-653.
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[67] Feagin, RA, Lozada-Bernard, SM, Ravens, TM, Moller, I, Yeager, KM and Baird, AH (2009). Does vegetation prevent wave erosion of salt marsh edges? Proceedings of the National Academy of Sciences 106(25): 10109-10113.
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[68] Feary, DA, McCormick, MI and Jones, GP (2009). Growth of reef fishes in response to live coral cover. Journal of Experimental Marine Biology and Ecology 373(1): 45-49.
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[69] Field, IC, Meekan, MG, Buckworth, RC and Bradshaw, CJA (2009). Protein mining the world's oceans: Australasia as an example of illegal expansion-and-displacement fishing. Fish and Fisheries 10(3): 323-328.
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[70] Fischer, J, Peterson, GD, Gardner, TA, Gordon, LJ, Fazey, I, Elmqvist, T, Felton, A, Folke, C and Dovers, S (2009). Integrating resilience thinking and optimisation for conservation. Trends in Ecology & Evolution 24(10): 549-554.
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[71] Fitt, WK, Gates, RD, Hoegh-Guldberg, O, Bythell, JC, Jatkar, A, Grottoli, AG, Gomez, M, Fisher, P, Lajuenesse, TC, Pantos, O, Iglesias-Prieto, R, Franklin, DJ, Rodrigues, LJ, Torregiani, JM, van Woesik, R and Lesser, MP (2009). Response of two species of Indo-Pacific corals, Porites cylindrica and Stylophora pistillata, to short-term thermal stress: The host does matter in determining the tolerance of corals to bleaching. Journal of Experimental Marine Biology and Ecology 373(2): 102-110.
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[72] Folke, C and Rockstrom, J (2009). Turbulent times. Global Environmental Change-Human and Policy Dimensions 19(1): 1-3.
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[73] Foret, S, Wilson, SR and Burden, CJ (2009). Characterizing the D2 statistic: Word matches in biological sequences. Statistical Applications in Genetics and Molecular Biology 8(1): 43.
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[74] Foret, S, Wilson, SR and Burden, CJ (2009). Empirical distribution of k-word matches in biological sequences. Pattern Recognition 42(4): 539-548.
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[75] Fox, RJ, Sunderland, TL, Hoey, AS and Bellwood, DR (2009). Estimating ecosystem function: Contrasting roles of closely related herbivorous rabbitfishes (Siganidae) on coral reefs. Marine Ecology-Progress Series 385: 261-269.
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[76] Frisch, AJ, Walker, SPW, McCormick, MI and Solomon-Lane, TK (2009). Regulation of protogynous sex change by competition between corticosteroids and androgens: An experimental test using sandperch, Parapercis cylindrica. Hormones and Behavior 55(1): 264-264.
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[77] Gagliano, M, Dunlap, WC, de Nys, R and Depczynski, M (2009). Ockham's razor gone blunt: Coenzyme Q adaptation and redox balance in tropical reef fishes. Biology Letters 5(3): 360-363.
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[78] Gagliano, M and McCormick, M (2009). Hormonally mediated maternal effects shape offspring survival potential in stressful environments. Oecologia 160(4): 657-665.
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[79] Game, ET, Grantham, HS, Hobday, AJ, Pressey, RL, Lombard, AT, Beckley, LE, Gjerde, K, Bustamante, R, Possingham, HP and Richardson, AJ (2009). Pelagic protected areas: The missing dimension in ocean conservation. Trends in Ecology & Evolution 24(7): 360-369.
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[80] Goatley, C and Bellwood, D (2009). Morphological structure in a reef fish assemblage. Coral Reefs 28(2): 449-457.
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[81] Gonzalez-Cabello, A and Bellwood, DR (2009). Local ecological impacts of regional biodiversity on reef fish assemblages. Journal of Biogeography 36(6): 1129-1137.
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[82] Gotelli, NJ, Anderson, MJ, Arita, HT, Chao, A, Colwell, RK, Connolly, SR, Currie, DJ, Dunn, RR, Graves, GR, Green, JL, Grytnes, JA, Jiang, YH, Jetz, W, Lyons, SK, McCain, CM, Magurran, AE, Rahbek, C, Rangel, T, Soberon, J, Webb, CO and Willig, MR (2009). Patterns and causes of species richness: A general simulation model for macroecology. Ecology Letters 12(9): 873-886.
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[83] Graham, N, Purkis, S and Harris, A (2009). Diurnal, land-based predation on shore crabs by moray eels in the Chagos Archipelago. Coral Reefs 28(2): 397.
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[84] Graham, N, Wilson, S, Pratchett, M, Polunin, N and Spalding, M (2009). Coral mortality versus structural collapse as drivers of corallivorous butterflyfish decline. Biodiversity and Conservation 18(12): 3325-3336.
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[85] Gusmao, LFM and McKinnon, AD (2009). Acrocalanus gracilis (Copepoda: Calanoida) development and production in the Timor Sea. Journal of Plankton Research 31(9): 1089-1100.
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[86] Gusmao, LFM and McKinnon, AD (2009). Sex ratios, intersexuality and sex change in copepods. Journal of Plankton Research 31(9): 1101-1117.
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[87] Gusmao, LFM and McKinnon, AD (2009). The effect of food type and quantity on egg production and nucleic acid content of Acartia sinjiensis. Aquaculture 296(1-2): 71-80.
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[88] Haapkyla, J, Unsworth, RKF, Seymour, AS, Melbourne-Thomas, J, Flavell, M, Willis, BL and Smith, DJ (2009). Spatio-temporal coral disease dynamics in the Wakatobi Marine National Park, South-East Sulawesi, Indonesia. Diseases of Aquatic Organisms 87(1-2): 105-115.
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[89] Halfar, J, Hetzinger, S, Zack, T, Simon, K, Kronz, A, Steneck, RS, Adey, W, Lebednik, PA, Schone, BR and Fietzke, J (2009). High-resolution analysis of trace elements in encrusting coralline red algae by laser ablation ICP-MS. Geochimica et Cosmochimica Acta 73(13): A487.
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[90] Heenan, A, Simpson, SD, Meekan, MG, Healy, SD and Braithwaite, VA (2009). Restoring depleted coral-reef fish populations through recruitment enhancement: A proof of concept. Journal of Fish Biology 75(7): 1857-1867.
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[91] Hicks, CC, McClanahan, TR, Cinner, JE and Hills, JM (2009). Trade-offs in values assigned to ecological goods and services associated with different coral reef management strategies. Ecology and Society 14(1): 10.
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[92] Hobbs, JP, Frisch, A, Hamanaka, T, McDonald, C, Gilligan, J and Neilson, J (2009). Seasonal aggregation of juvenile whale sharks (Rhincodon typus) at Christmas Island, Indian Ocean. Coral Reefs 28(3): 577-577.
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[93] Hobbs, JPA, Frisch, AJ, Allen, GR and Van Herwerden, L (2009). Marine hybrid hotspot at Indo-Pacific biogeographic border. Biology Letters 5(2): 258-261.
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[94] Hoegh-Guldberg, O (2009). Climate change and coral reefs: Trojan horse or false prophecy? Coral Reefs 28(3): 569-575.
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[95] Hoey, AS and Bellwood, DR (2009). Limited functional redundancy in a high diversity system: Single species dominates key ecological process on coral reefs. Ecosystems 12(8): 1316-1328.
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[96] Holmes, T and McCormick, M (2009). Influence of prey body characteristics and performance on predator selection. Oecologia 159(2): 401-413.
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[97] Hoogenboom, M, Connolly, S and Anthony, K (2009). Effects of photoacclimation on the light niche of corals: A process-based approach. Marine Biology 156(12): 2493-2503.
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[98] Hoogenboom, MO and Connolly, SR (2009). Defining fundamental niche dimensions of corals: Synergistic effects of colony size, light, and flow. Ecology 90(3): 767-780.
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[99] Howells, E, van Oppen, MJH and Willis, B (2009). High genetic differentiation and cross-shelf patterns of genetic diversity among Great Barrier Reef populations of Symbiodinium. Coral Reefs 28(1): 215-225.
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[100] Idjadi, J and Karlson, R (2009). Spatial aggregation promotes species coexistence among corals: Evidence from experiments and modeling. Integrative and Comparative Biology 49(Supplement 1): E83.
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[101] Iguchi, A, Morita, M, Nakajima, Y, Nishikawa, A and Miller, D (2009). In vitro fertilization efficiency in coral Acropora digitifera. Zygote 17(3): 225-227.
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[102] Jones, G, Almany, G, Russ, G, Sale, P, Steneck, R, van Oppen, MJH and Willis, B (2009). Larval retention and connectivity among populations of corals and reef fishes: History, advances and challenges. Coral Reefs 28(2): 307-325.
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[103] Jones, PD, Briffa, KR, Osborn, TJ, Lough, JM, van Ommen, TD, Vinther, BM, Luterbacher, J, Wahl, ER, Zwiers, FW, Mann, ME, Schmidt, GA, Ammann, CM, Buckley, BM, Cobb, KM, Esper, J, Goosse, H, Graham, N, Jansen, E, Kiefer, T, Kull, C, Kuttel, M, Mosley-Thompson, E, Overpeck, JT, Riedwyl, N, Schulz, M, Tudhope, AW, Villalba, R, Wanner, H, Wolff, E and Xoplaki, E (2009). High-resolution palaeoclimatology of the last millennium: A review of current status and future prospects. The Holocene 19(1): 3-49.
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[111] Krajewski, JP, Bonaldo, RM, Sazima, C and Sazima, I (2009). Octopus mimicking its follower reef fish. Journal of Natural History 43(3-4): 185-190.
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[112] Kroon, FJ, Munday, PL and Westcott, DA (2009). Equivalent whole-body concentrations of 11-ketotestosterone in female and male coral goby Gobiodon erythrospilus, a bidirectional sex-changing fish. Journal of Fish Biology 75(3): 685-692.
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[113] Kvennefors, E and Roff, G (2009). Evidence of cyanobacteria-like endosymbionts in Acroporid corals from the Great Barrier Reef. Coral Reefs 28(2): 547.
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[114] Lemberget, T, McCormick, M and Wilson, D (2009). Environmental influences on the replenishment of lizardfish (family Synodontidae) in Caribbean Panama. Coral Reefs 28(3): 737-750.
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[115] Lemberget, T and McCormick, MI (2009). Replenishment success linked to fluctuating asymmetry in larval fish. Oecologia 159(1): 83-93.
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[116] Leray, M, Beldade, R, Holbrook, SJ, Schmitt, RJ, Planes, S and Bernardi, G (2009). Isolation and characterization of 13 polymorphic nuclear microsatellite primers for the widespread Indo-Pacific three-spot damselfish, Dascyllus trimaculatus, and closely related D. auripinnis. Molecular Ecology Resources 9(1): 213-215.
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[117] Littman, RA, Willis, BL and Bourne, DG (2009). Bacterial communities of juvenile corals infected with different Symbiodinium (dinoflagellate) clades. Marine Ecology-Progress Series 389: 45-59.
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[118] Littman, RA, Willis, BL, Pfeffer, C and Bourne, DG (2009). Diversities of coral-associated bacteria differ with location, but not species, for three acroporid corals on the Great Barrier Reef. Fems Microbiology Ecology 68(2): 152-163.
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[119] MacNeil, MA, Graham, NAJ, Polunin, NVC, Kulbicki, M, Galzin, R, Harmelin-Vivien, M and Rushton, SP (2009). Hierarchical drivers of reef-fish metacommunity structure. Ecology 90(1): 252-264.
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[120] Mallela, J and Crabbe, MJC (2009). Hurricanes and coral bleaching linked to changes in coral recruitment in Tobago. Marine Environmental Research 68(4): 158-162.
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[121] McClanahan, TR, Cinner, JE, Graham, NAJ, Daw, TM, Maina, J, Stead, SM, Wamukota, A, Brown, K, Venus, V and Polunin, NVC (2009). Identifying reefs of hope and hopeful actions: Contextualizing environmental, ecological, and social parameters to respond effectively to climate change. Conservation Biology 23(3): 662-671.
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[126] Meyer, E, Aglyamova, GV, Wang, S, Buchanan-Carter, J, Abrego, D, Colbourne, JK, Willis, BL and Matz, MV (2009). Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx. BMC Genomics 10: 219.
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[128] Mieog, JC, Olsen, JL, Berkelmans, R, Bleuler-Martinez, SA, Willis, BL and van Oppen, MJH (2009). The roles and interactions of symbiont, host and environment in defining coral fitness. PLoS ONE 4(7): e6364.
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[129] Mieog, JC, Van Oppen, MJH, Berkelmans, R, Stam, WT and Olsen, JL (2009). Quantification of algal endosymbionts (Symbiodinium) in coral tissue using real-time PCR. Molecular Ecology Resources 9(1): 74-82.
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[144] Olson, ND, Ainsworth, TD, Gates, RD 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): 140-146.
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[145] Ortiz, J, Gomez-Cabrera, M and Hoegh-Guldberg, O (2009). Effect of colony size and surrounding substrate on corals experiencing a mild bleaching event on Heron Island reef flat (southern Great Barrier Reef, Australia). Coral Reefs 28(4): 999-1003.
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[146] Page, CA, Baker, DM, Harvell, CD, Golbuu, Y, Raymundo, L, Neale, SJ, Rosell, KB, Rypien, KL, Andras, JP and Willis, BL (2009). Influence of marine reserves on coral disease prevalence. Diseases of Aquatic Organisms 87(1-2): 135-150.
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[147] Peplow, LM, Kingsford, MJ, Seymour, JE and van Oppen, MJH (2009). Eight microsatellite loci for the Irukandji syndrome-causing carybdeid jellyfish, Carukia barnesi (Cubozoa, Cnidaria). Molecular Ecology Resources 9(2): 670-672.
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[151] Pressey, RL and Bottrill, MC (2009). Approaches to landscape and seascape-scale conservation planning: Convergence, contrasts and challenges. Oryx 43(4): 464-475.
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[152] Puill-Stephan, E, Willis, BL, van Herwerden, L and van Oppen, MJH (2009). Chimerism in wild adult populations of the broadcast spawning coral Acropora millepora on the Great Barrier Reef. PLoS ONE 4(11): e7751.
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[154] Raventos, N, Ferrari, B and Planes, S (2009). Differences in population parameters and behaviour of the herbivorous fish Sarpa salpa between protected and unprotected seagrass meadows in the north-western Mediterranean. Journal of the Marine Biological Association of the United Kingdom 89(6): 1153-1159.
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[161] Rodriguez-Lanetty, M, Harii, S and Hoegh-Guldberg, O (2009). Early molecular responses of coral larvae to hyperthermal stress. Molecular Ecology 18(24): 5101-5114.
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[163] Rowat, D, Gore, M, Meekan, MG, Lawler, IR and Bradshaw, CJA (2009). Aerial survey as a tool to estimate whale shark abundance trends. Journal of Experimental Marine Biology and Ecology 368(1): 1-8.
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[164] Rowat, D, Speed, CW, Meekan, MG, Gore, MA and Bradshaw, CJA (2009). Population abundance and apparent survival of the Vulnerable whale shark Rhincodon typus in the Seychelles aggregation. Oryx 43(4): 591-598.
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[167] Sato, Y, Bourne, DG and Willis, BL (2009). Dynamics of seasonal outbreaks of black band disease in an assemblage of Montipora species at Pelorus Island (Great Barrier Reef, Australia). Proceedings of the Royal Society B-Biological Sciences 276(1668): 2795-2803.
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[168] Stat, M, Loh, W, LaJeunesse, T, Hoegh-Guldberg, O and Carter, D (2009). Stability of coral-endosymbiont associations during and after a thermal stress event in the southern Great Barrier Reef. Coral Reefs 28(3): 709-713.
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[169] Steneck, R, Paris, C, Arnold, S, Ablan-Lagman, M, Alcala, A, Butler, M, McCook, L, Russ, G and Sale, P (2009). Thinking and managing outside the box: Coalescing connectivity networks to build region-wide resilience in coral reef ecosystems. Coral Reefs 28(2): 367-378.
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[170] Steneck, RS (2009). Marine conservation: Moving beyond malthus. Current Biology 19(3): R117.
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[171] Stockwell, B, Jadloc, CRL, Abesamis, RA, Alcala, AC and Russ, GR (2009). Trophic and benthic responses to no-take marine reserve protection in the Philippines. Marine Ecology-Progress Series 389: 1-15.
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[172] Sussman, M, Mieog, JC, Doyle, J, Victor, S, Willis, BL and Bourne, DG (2009). Vibrio zinc-metalloprotease causes photoinactivation of coral endosymbionts and coral tissue lesions. PLoS ONE 4(2): e4511.
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[173] Tanner, JE, Hughes, TP and Connell, JH (2009). Community-level density dependence: An example from a shallow coral assemblage. Ecology 90(2): 506-516.
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[180] Walker, B, Barrett, S, Polasky, S, Galaz, V, Folke, C, Engstrom, G, Ackerman, F, Arrow, K, Carpenter, S, Chopra, K, Daily, G, Ehrlich, P, Hughes, T, Kautsky, N, Levin, S, Maler, K-G, Shogren, J, Vincent, J, Xepapadeas, T and de Zeeuw, A (2009). Looming global-scale failures and missing institutions. Science 325(5946): 1345-1346.
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Books and Book Chapters
[1] Eakin, CM, Lough, JM and Heron, SF (2009). Climate variability and change: Monitoring data and evidence for increased coral bleaching stress. pp 41-67. In Coral Bleaching. M. J. H. van Oppen and J. M. Lough (Eds.). Springer, Berlin Heidelberg.
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[2] Ferguson, KH (2009). That's not a reef, now that's a reef: A century of (Re)placing the Great Barrier Reef. pp 223-236. In ECOSEE: Image, Rhetoric, and Nature. S. I. Dobrin and S. Morey (Eds.). State University of New York Press, New York.
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[3] Hughes, TP (2009). Confronting the global decline of coral reefs. pp 140-166. In Loss of Coastal Ecosystems. C. Duarte (Ed.). BBVA Foundation, Madrid.
[4] Hughes, TP (2009). Seascape patterns and dynamics of coral reefs. pp 482-487. In The Princeton Guide to Ecology. S. A. Levin (Ed.). Princeton Press, Princeton.
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[5] Lough, JM and van Oppen, MJH (2009). Introduction: Coral bleaching - patterns, processes, causes and consequences. pp 1-5. In Coral Bleaching. M. J. H. van Oppen and J. M. Lough (Eds.). Springer, Berlin Heidelberg.
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[6] McClanahan, TR, Weil, E, Cortes, J, Baird, AH and Ateweberhan, M (2009). Consequences of coral bleaching for sessile reef organisms. pp 121-138. In Coral Bleaching. M. J. H. van Oppen and J. M. Lough (Eds.). Springer, Berlin Heidelberg.
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[7] Pratchett, MS, Wilson, SK, Graham, NAJ, Munday, PL, Jones, GP and Polunin, NVC (2009). Coral bleaching and consequences for motile reef organisms: Past, present and uncertain future effects. pp 139-158. In Coral Bleaching. M. J. H. van Oppen and J. M. Lough (Eds.). Springer, Berlin Heidelberg.
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[8] van Oppen, MJH, Baker, AC, Coffroth, MA and Willis, BL (2009). Bleaching resistance and the role of algal endosymbionts. pp 83-102. In Coral Bleaching. M. J. H. van Oppen and J. M. Lough (Eds.). Springer, Berlin Heidelberg.
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[9] van Oppen, MJH and Lough, JM (2009). Coral bleaching: Patterns, processes, causes and consequences 178 pp. Springer, Berlin Heidelberg.
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[10] van Oppen, MJH and Lough, JM (2009). Synthesis: Coral bleaching - patterns, processes, causes and consequences. pp 175-176. In Coral Bleaching. M. J. H. van Oppen and J. M. Lough (Eds.). Springer, Berlin Heidelberg.
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Reports
[1] Baldwin, K, England, M, Hoegh-Guldberg, O, Hughes, T, Karoly, D, Lough, J, Lynch, A, McCulloch, M, Nicholls, N, Pitman, A, Possingham, H, Quiggin, J and Steffen, W (2009). Emissions reduction targets and the Great Barrier Reef. 4 pp. Report for Federation of Australian Scientific and Technological Societies, Canberra.
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[2] Foale, S (2009). A review of ecosystem approach to fisheries within The Nature Conservancy's community engagement processes in Melanesia. 29 pp. Report for The Nature Conservancy, Brisbane.
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Magazine Articles
[1] Hughes, T, World at a tipping point, in Australian R&D Review. 2009, Australian Research Council: Canberra. p. 9.
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[2] Hughes, TP, Two degrees from disaster, in Sustainability: Australia's Future. 2009, Palamedia: Sydney. p. 58-60.
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Conference Proceedings
[1] Cinner, JE, McClanahan, TR, Abunge, C and Wamukota, AW. (2009). Human dimensions of conserving Kenya's coral reefs. Proceedings of Coastal Ecology Conference IV,. Mombassa: African Studies Centre.
