Incorporating benthic community changes into hydrochemical-based projections of coral reef calcium carbonate production under ocean acidification

Andersson AJ, Gledhill D (2013) Ocean acidification and coral reefs: effects on breakdown, dissolution, and net ecosystem calcification. Annu Rev Mar Sci 5:321–348 Andersson AJ, Mackenzie FT, Ver LM (2003) Solution of shallow-water carbonates: an insignificant buffer against rising atmospheric CO2. Geology 31:513–516 Andersson A, Kline D, Edmunds P, Archer S, Bednaršek N, Carpenter R, Chadsey M, Goldstein P, Grottoli A, Hurst T (2015) Understanding ocean acidification impacts on organismal to ecological scales. Oceanography 25:16–27 Andréfouët S, Payri C (2001) Scaling-up carbon and carbonate metabolism of coral reefs using in situ data and remote sensing. Coral Reefs 19:259–269 Anthony KRN, Kline DI, Diaz-Pulido G, Dove S, Hoegh-Guldberg O (2008) Ocean acidification causes bleaching and productivity loss in coral reef builders. Proc Natl Acad Sci 105:17442–17446 Barnes D (1983) Profiling coral reef productivity and calcification using pH and oxygen electrodes. J Exp Mar Bio Ecol 66:149–161 Brock JC, Yates KK, Halley RB, Kuffner IB, Wright CW, Hatcher BG (2006) Northern Florida reef tract benthic metabolism scaled by remote sensing. Mar Ecol Prog Ser 312:123–139 Chan N, Connolly SR (2013) Sensitivity of coral calcification to ocean acidification: a meta-analysis. Glob Chang Biol 19:282–290 Chave KE, Smith SV, Roy KJ (1972) Carbonate production by coral reefs. Mar Geol 12:123–140 Chisholm JR (2000) Calcification by crustose coralline algae on the northern Great Barrier Reef, Australia. Limnol Oceanogr 45:1476–1484 Cyronak T, Santos IR, Eyre BD (2013) Permeable coral reef sediment dissolution driven by elevated pCO2 and pore water advection. Geophys Res Lett 40:4876–4881 Enochs IC, Manzello DP, Donham EM, Kolodziej G, Okano R, Johnston L, Young C, Iguel J, Edwards CB, Fox MD, Valentino L, Johnson S, Benavente D, Clark SJ, Carlton R, Burton T, Eynaud Y, Price NN (2015) Shift from coral to macroalgae dominance on a volcanically acidified reef. Nat Clim Chang 5:1083–1088 Eyre BD, Andersson AJ, Cyronak T (2014) Benthic coral reef calcium carbonate dissolution in an acidifying ocean. Nat Clim Chang 4:969–976 Fabricius KE, Langdon C, Uthicke S, Humphrey C, Noonan S, De’ath G, Okazaki R, Muehllehner N, Glas MS, Lough JM (2011) Losers and winners in coral reefs acclimatized to elevated carbon dioxide concentrations. Nat Clim Chang 1:165–169 Friedman A, Pizarro O, Williams SB, Johnson-Roberson M (2012) Multi-scale measures of rugosity, slope and aspect from benthic stereo image reconstructions. PloS One 7:e50440 Goatley CHR, Bellwood DR (2011) The roles of dimensionality, canopies and complexity in ecosystem monitoring. PLoS One 6:e27307 Goodman JA, Purkis SJ, Phinn SR (2013) Coral reef remote sensing: a guide for mapping, monitoring and management. Springer, Dordrecht, pp 3–28 Hamylton S (2014) Will coral islands maintain their growth over the next century? A deterministic model of sediment availability at Lady Elliot Island. Great Barrier Reef. PloS One 9:e94067 Hamylton S, Silverman J, Shaw E (2013) The use of remote sensing to scale up measures of carbonate production on reef systems: a comparison of hydrochemical and census-based estimation methods. Int J f Remote Sens 34:6451–6465 Harney JN, Fletcher CH (2003) A budget of carbonate framework and sediment production, Kailua Bay, Oahu. Hawaii. J Sediment Res 73:856–868 Hatcher B (1997) Coral reef ecosystems: how much greater is the whole than the sum of the parts? Coral Reefs 16:S77–S91 Hoegh-Guldberg O, Mumby PJ, Hooten AJ, Steneck RS, Greenfield P, Gomez E, Harvell CD, Sale PF, Edwards AJ, Caldeira K, Knowlton N, Eakin CM, Iglesias-Prieto R, Muthiga N, Bradbury RH, Dubi A, Hatziolos ME (2007) Coral reefs under rapid climate change and ocean acidification. Science 318:1737–1742 Hughes TP, Baird AH, Bellwood DR, Card M, Connolly SR, Folke C, Grosberg R, Hoegh-Guldberg O, Jackson JBC, Kleypas J, Lough JM, Marshall P, Nystrom M, Palumbi SR, Pandolfi JM, Rosen B, Roughgarden J (2003) Climate change, human impacts, and the resilience of coral reefs. Science 301:929–933 Inoue S, Kayanne H, Yamamoto S, Kurihara H (2013) Spatial community shift from hard to soft corals in acidified water. Nat Clim Chang 3:683–687 Jones NS, Ridgwell A, Hendy EJ (2015) Evaluation of coral reef carbonate production models at a global scale. Biogeosciences 12:1339–1356 Kayanne H, Suzuki A, Saito H (1995) Diurnal changes in the partial-pressure of carbon-dioxide in coral-reef water. Science 269:214–216 Kayanne H, Hata H, Kudo S, Yamano H, Watanabe A, Ikeda Y, Nozaki K, Kato K, Negishi A, Saito H (2005) Seasonal and bleaching-induced changes in coral reef metabolism and CO2 flux. Global Biogeochem Cycles 19:GB3015 Kinsey DW (1985) Calcification and carbon production I: system level studies. Proc 5th Int Coral Reef Symp 4:505–526 Kleypas JA, Yates KK (2009) Coral reefs and ocean acidification. Oceanography 22:108–117 Langdon C, Gattuso JP, Andersson A (2010) Measurements of calcification and dissolution of benthic organisms and communities. In: Riebessel U, Fabry VJ, Hansson L, Gattuso JP (eds) Guide to best practices for ocean acidification research and data reporting. European Union, Luxembourg, pp 213–232 Lough J (2008) Coral calcification from skeletal records revisited. Mar Ecol Prog Ser 373:257–264 Manzello DP, Kleypas JA, Budd DA, Eakin CM, Glynn PW, Langdon C (2008) Poorly cemented coral reefs of the eastern tropical Pacific: possible insights into reef development in a high-CO2 world. Proc Natl Acad Sci U S A 105:10450–10455 Milliman JD (1993) Production and accumulation of calcium carbonate in the ocean: budget of a nonsteady state. Global Biogeochem Cycles 7:927–957 Moberg F, Folke C (1999) Ecological goods and services of coral reef ecosystems. Ecol Econ 29:215–233 Nakamura T, Nakamori T (2009) Estimation of photosynthesis and calcification rates at a fringing reef by accounting for diurnal variations and the zonation of coral reef communities on reef flat and slope: a case study for the Shiraho reef, Ishigaki Island, southwest Japan. Coral Reefs 28:229–250 Ohde S, van Woesik R (1999) Carbon dioxide flux and metabolic processes of a coral reef, Okinawa. Bull Mar Sci 65:559–576 Perry C, Edinger E, Kench P, Murphy G, Smithers S, Steneck R, Mumby P (2012) Estimating rates of biologically driven coral reef framework production and erosion: a new census-based carbonate budget methodology and applications to the reefs of Bonaire. Coral Reefs 31:853–868 Perry CT, Murphy GN, Kench PS, Smithers SG, Edinger EN, Steneck RS, Mumby PJ (2013) Caribbean-wide decline in carbonate production threatens coral reef growth. Nat Commun 4:1402 Rees S, Opdyke B, Wilson P, Henstock T (2007) Significance of Halimeda bioherms to the global carbonate budget based on a geological sediment budget for the Northern Great Barrier Reef, Australia. Coral Reefs 26:177–188 Riebesell U, Gattuso J-P (2015) Lessons learned from ocean acidification research. Nat Clim Chang 5:12–14 Shaw EC, McNeil BI (2014) Seasonal variability in carbonate chemistry and air–sea CO2 fluxes in the southern Great Barrier Reef. Mar Chem 158:49–58 Shaw EC, McNeil BI, Tilbrook B (2012) Impacts of ocean acidification in naturally variable coral reef flat ecosystems. J Geophys Res Oceans 117:C03038 Shaw EC, Phinn SR, Tilbrook B, Steven A (2014) Comparability of slack water and Lagrangian flow respirometry methods for community metabolic measurements. PloS One 9:e112161 Shaw EC, Phinn SR, Tilbrook B, Steven A (2015) Natural in situ relationships suggest coral reef calcium carbonate production will decline with ocean acidification. Limnol Oceanogr 60:777–788 Silverman J, Lazar B, Erez J (2007) Effect of aragonite saturation, temperature, and nutrients on the community calcification rate of a coral reef. J Geophys Res Oceans 112:C05004 Silverman J, Kline D, Johnson L, Rivlin T, Schneider K, Erez J, Lazar B, Caldeira K (2012) Carbon turnover rates in the One Tree Island reef: a 40-year perspective. J Geophys Res Biogeosci 117:G03023 Sinutok S, Hill R, Doblin M, Kühl M, Ralph P (2012) Microenvironmental changes support evidence of photosynthesis and calcification inhibition in Halimeda under ocean acidification and warming. Coral Reefs 31:1201–1213 Smith S (1978) Alkalinity depletion to estimate the calcification of coral reefs in flowing waters. In: Stoddart DR, Johannes R (eds) Coral reefs: research methods. UNESCO, Paris, pp 397–404 Smith SV, Harrison JT (1977) Calcium carbonate production of the Mare Incognitum, the upper windward reef slope, at Enewetak Atoll. Science 197:556–559 Stumpf RP, Holderied K, Sinclair M (2003) Determination of water depth with high-resolution satellite imagery over variable bottom types. Limnol Oceanogr 48:547–556 Suzuki A, Nakamori T, Kayanne H (1995) The mechanism of production enhancement in coral-reef carbonate systems - model and empirical results. Sediment Geol 99:259–280 Vecsei A (2004) A new estimate of global reefal carbonate production including the fore-reefs. Glob Planet Change 43:1–18 Venti A, Kadko D, Andersson A, Langdon C, Bates N (2012) A multi-tracer model approach to estimate reef water residence times. Limnol Oceanogr Methods 10:1078–1095 Wilkinson C (2008) Status of coral reefs of the world: 2008. Global Coral Reef Monitoring Network and Reef and Rainforest Research Centre, Townsville, Australia 296 pp Yates KK, Halley RB (2006) CO3 2− concentration and pCO(2) thresholds for calcification and dissolution on the Molokai reef flat, Hawaii. Biogeosci Discuss 3:357–369