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Biogeochemical Dynamics of Coral Reef Systems

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Coral Reefs of the Western Pacific Ocean in a Changing Anthropocene

Part of the book series: Coral Reefs of the World ((CORW,volume 14))

Abstract

Biogeochemistry of chemical elements plays a critical role in the evolution of coral reefs with significant impacts on the relationship between corals and symbiotic algae, new vs recycled productions, and the biodiversity of coral ecosystem. In this chapter, we review the major driving forces and pathways of chemical elements in coral reefs and assess the effects of biogeochemical cycles on the autotrophic and heterotrophic processes as well as the calcification of corals in the Western Pacific Ocean. Using a modeling approach, we estimate the influence of hydrographic properties and nutrients on the dynamic nature (e.g., production, respiration, and calcification) of coral systems. This study is essentially based on the research results from the Western Pacific Region, but the experiences and lessons learned can be beneficial to the other areas of the world.

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Notes

  1. 1.

    Summary of abbreviations and symbols with their units used in the text of this chapter

References

  • Abram N, Gagan M, McCulloch M, Chappell J, Hantoro W (2003) Coral reef death during the 1997 Indian Ocean dipole linked to Indonesian wildfires. Science 301:952–955

    Article  CAS  PubMed  Google Scholar 

  • Albright R, Langdon C, Anthony KRN (2013) Dynamics of seawater carbonate chemistry, production, and calcification of a coral reef flat, Central Great Barrier Reef. Biogeosciences 10:6747–6758

    Article  CAS  Google Scholar 

  • Albright R, Benthuysen J, Cantin N, Caldeira K, Anthony K (2015) Coral reef metabolism and carbon chemistry dynamics of a coral reef flat. Geophys Res Lett 42:3980–3988. https://doi.org/10.1002/2015GL063488

    Article  CAS  Google Scholar 

  • Al-Horani FA, Al-Moghrabi SM, de Beer D (2003) The mechanism of calcification and its relation to photosynthesis and respiration in the scleractinian coral Galaxea fascicularis. Mar Biol 142:419–426

    Article  CAS  Google Scholar 

  • Allemand D, Ferrier-Pages C, Furla P, Houlbreque F, Puverel S, Reynaud S, Tambutte E, Tambutte S, Zoccola D (2004) Biomineralisation in reef-building corals: from molecular mechanisms to environmental control. CR Palevol 3:453–467

    Article  Google Scholar 

  • Altieri AH, Harrison SB, Semann J, Collin R, Diaz RJ, Knowlton N (2017) Tropical dead zones and mass mortalities on coral reefs. PNAS 114:3660–3665

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Al-Moghrabi S, Allemand D, Couret JM, Jaubert J (1995) Fatty acids of the scleractinian coral Galaxea Fascicularis: effect of light and feeding. J Comp Physiol B 165:183–119. https://doi.org/10.1007/BF00260809

    Article  Google Scholar 

  • Amato DW, Bishop JM, Glenn CR, Dulai H, Smoth CM (2016) Impact of submarine groundwater discharge on marine water quality and reef biota of Maui. PLoS One 11:e0165825. https://doi.org/10.1037/journal.pone.0165825

    Article  PubMed  PubMed Central  Google Scholar 

  • Ambariyanto, Hoegh-Guldberg O (1996) Nutrient enrichment and the ultrastructure of zooxanthellae from the giant clam Tridacna maxima. Mar Biol 125:359–363

    Article  Google Scholar 

  • Andersson AJ, Kuffner IB, Mackenzie FT, Jokiel PL, Rodgers KS, Tan A (2009) Net loss of CaCO3 from a subtropical calcifying community due to seawater acidification: mesocosm-scale experimental evidence. Biogeosciences 6:1811–1823

    Article  CAS  Google Scholar 

  • Anthony KRN (2000) Enhanced particle-feeding capacity of corals. Coral Reefs 19:59–67

    Article  Google Scholar 

  • Anthony KRN (2006) Enhanced energy status of corals on coastal, high-turbidity reefs. Mar Ecol Prog Ser 319:111–116

    Article  Google Scholar 

  • Anthony KRN, Fabricius KE (2000) Shifting roles of heterotrophy and autotrophy in coral energetics under varying turbidity. J Exp Mar Biol Ecol 252:221–253

    Article  CAS  PubMed  Google Scholar 

  • Atkinson MJ (2011) Biogeochemistry of nutrients. In: Dubinsky Z, Stambler N (eds) Coral reefs: an ecosystem in transition. Springer, Dordrecht, pp 199–206

    Chapter  Google Scholar 

  • Atkinson MJ, Falter JL (2003) Coral reefs. In: Black KD, Shimmield GB (eds) Biogeochemistry of marine systems. CRC Press, Oxford, pp 40–64

    Google Scholar 

  • Baird ME, Adams MP, Babcock RC, Oubelkheir K, Mongin M, Wild-Allen KA, Skerratt J, Robson BJ, Petrou K, Ralph PJ, O’Brien KR, Carter AB, Jarvis JC, Rasheed MA (2016) A biophysical representation of seagrass growth for application in a complex shallow-water biogeochemical model. Ecol Model 325:13–27

    Article  CAS  Google Scholar 

  • Banaszak AT, Lesser MP (2009) Effects of solar ultraviolet radiation on coral reef organisms. Photochem Photobiol Sci 9:1276–1194

    Article  CAS  Google Scholar 

  • Barnes BB, Hallock P, Hu C, Muller-Karger F, Palandro D, Walter C, Zepp R (2015) Prediction of coral bleaching in the Florida keys using remotely sensed data. Coral Reefs 34:491–503

    Article  Google Scholar 

  • Belda C, Lucas J, Yellowlees D (1993) Nutrient limitation in Tridacna gigas symbiosis: effect of nutrient supplements on growth of symbiotic partners. Mar Biol 117:655–664

    Article  Google Scholar 

  • Cohen AL, Holcomb M (2009) Why corals care about ocean acidification: uncovering the mechanisms. Oceanography 22:118–127

    Article  Google Scholar 

  • Cohen AL, McConnaughey TA (2003) Geochemical perspectives on coral mineralization. Rev Mineral Geochem 54(1):151–187

    Article  CAS  Google Scholar 

  • Cooper TF, Uthicke S, Humphrey C, Fabricius KE (2007) Gradients in water column nutrients, sediment parameters, irradiance and coral reef development in the Whitsunday region, central Great Barrier Reef. Estu Coast Shelf Sci 74:458–470

    Article  Google Scholar 

  • Cunning R, Baker AC (2013) Excess algal symbionts increase the susceptibility of reef corals to bleaching. Nat Clim Change 3:259–262

    Article  Google Scholar 

  • D’Elia CF, Wiebe WJ (1990) Biogeochemical nutrient cycles in coral-reef ecosystems. In: Zubinsky Z (ed) Coral reefs: ecosystems of the world series. Elsevier, Amsterdam, pp 49–74

    Google Scholar 

  • Davies PS (1984) The role of zooxanthellae in the nutritional energy requirements of Pocillopora eydouxi. Coral Reefs 2:181–186

    Google Scholar 

  • Davies PS (1991) Effect of daylight variations on the energy budgets of shallow-water corals. Mar Biol 108:137–144

    Article  Google Scholar 

  • DeCarlo TM, Cohen AL, Wong GTF, Shiah FK, Lentz SJ, Davis KA, Shamberger EF, Lohmann P (2017) Community production modulates coral reef pH and the sensitivity of ecosystem calcification to ocean acidification. J Geophys Res Oceans 122:745–761. https://doi.org/10.1002/2016JC012326

    Article  CAS  Google Scholar 

  • Dietzel A, Bode M, Connolly SR, Hughes TP (2021) The population sizes and global extinction risk of reef-building coral species at biogeographic scales. Nat Ecol Evol. https://doi.org/10.1038/s41559-021-01393-4

  • Dinsdale EA, Rohwer F (2011) Fish or germs? Microbial dynamics associated with changing trophic structure on coral reefs. In: Dubinsky Z, Stambler N (eds) Coral reefs: an ecosystem in transition. Springer, Dordrecht, pp 231–240

    Chapter  Google Scholar 

  • Domotor SL, D’Elia CF (1984) Nutrient uptake kinetics and growth of zooxanthellae maintained in laboratory culture. Mar Biol 80(1):93–101

    Article  CAS  Google Scholar 

  • Dubinsky Z, Stambler N, Ben-Zion M, McClosky LR, Muscatine L, Falkowski PG (1990) The effect of external nutrient resources on the optical properties and photosynthetic efficiency of Stylophora pistillata. Proc R Soc Lond B 239:231–246

    Article  Google Scholar 

  • Edmunds PJ, Davies PS (1986) An energy budget for Porites porites (Scleractinia). Mar Biol 92:339–347

    Article  Google Scholar 

  • Ellis JI, Jamil T, Anlauf H, Coker DJ, Curdia J, Hewitt J, Jones BH, Krokos G, Kurten B, Hariprasad D, Roth F, Carvalho S, Hoteit I (2019) Multiple stressor effects on coral reef ecosystems. Glob Change Biol 25:4131–4146

    Article  Google Scholar 

  • Fabricius KE, De’ath G (2008) Photosynthetic symbionts and energy supply determine octocoral biodiversity in coral reefs. Ecology 89:3163–3173

    Article  CAS  PubMed  Google Scholar 

  • Fabricius KE, Yahel G, Genin A (1995) Herbivory in asymbiotic soft corals. Science 268:90–93

    Article  CAS  PubMed  Google Scholar 

  • Falkowski PG, Dubinsky Z, Muscatine L, Porter JW (1984) Light and the bioenergetics of a symbiotic coral. Bioscience 34:705–709

    Article  CAS  Google Scholar 

  • Falkowski PG, Dubinsky Z, Muscatine L, McCloskey L (1993) Population control in symbiotic corals. Bioscience 43:606–611

    Article  Google Scholar 

  • Falter JL, Lowe RJ, Atkinson MA, Cuet P (2012) Seasonal coupling and de-coupling of net calcification rates from coral reef metabolism and carbonate chemistry at Ningaloo reef, Western Australia. J Geophys Res 117:C05003. https://doi.org/10.1029/2011JC007268

    Article  CAS  Google Scholar 

  • Fang JKH, Schonberg CHL, Mello-Athayde MA, Hoegh-Guldberg O, Dove S (2014) Effects of ocean warming and acidification on the energy budget of an excavating sponge. Glob Change Biol 20:1043–1054

    Article  Google Scholar 

  • Ferrier MD (1991) Net uptake of dissolved free amino acids by four scleractinian corals. Coral Reefs 10:183–187

    Article  Google Scholar 

  • Ferrier-Pages C, Hoogenboom M, Houlbreque F (2011) The role of plankton in coral trophodynamics. In: Dubinsky Z, Stambler N (eds) Coral reefs: an ecosystem in transition. Springer, Dordrecht, pp 215–229

    Chapter  Google Scholar 

  • Fowell SE, Foster GL, Ries JB, Castillo KD, de la Vega E, Tyrrell T, Donald HK, Chalk TB (2018) Historical trends in pH and carbonate biogeochemistry on the Belize Mesoamerican barrier reef system. Geophys Res Lett 45:3228–3237

    Article  CAS  Google Scholar 

  • Fricke A, Teichberg M, Nugues MM, Beilfuss S, Bischof K (2014) Effect of depth and ultraviolet radiation on coral reef turf algae. J Exp Mar Biol Ecol 461:73–84

    Article  Google Scholar 

  • Furla P, Galgani I, Durand I, Allemand D (2000) Sources and mechanisms of inorganic carbon transport for coral calcification and photosynthesis. J Exp Biol 203(22):3445–3457

    Article  CAS  PubMed  Google Scholar 

  • Gattuso JP, Pichon M, Delesalle B, Frankignoulle M (1993) Community metabolism and air-sea CO2 fluxes in a coral reef ecosystem (Moorea, French Polynesia). Mar Ecol Prog Ser 96:259–267

    Article  Google Scholar 

  • Gattuso JP, Pichon M, Delesalle B, Canon C, Frankignoulle M (1996) Carbon fluxes in coral reefs: 1. Lagrangian measurement of community metabolism and resulting air-sea CO2 disequilibrium. Mar Ecol Prog Ser 145:109–121

    Article  Google Scholar 

  • Genin A, Monismith SG, Reidenbach MA, Yahel G, Koseff JR (2009) Intense benthic grazing of phytoplankton in a coral reef. Limnol Oceanogr 54:938–951

    Article  Google Scholar 

  • Glynn PW (1997) Bioerosion and coral reef growth: a dynamic balance. In: Birkeland C (ed) Life and death of coral reefs. Chapman & Hall, New York, pp 68–94

    Chapter  Google Scholar 

  • Glynn PW (2004) High complexity food webs in low-diversity eastern Pacific reef – coral communities. Ecosystems 7:358–367

    Article  Google Scholar 

  • Grigg RW (1995) Coral reefs in an urban embayment in Hawaii: a complex case history controlled by natural and anthropogenic stress. Coral Reefs 14:253–266

    Article  Google Scholar 

  • Grottoli AG, Wellington GM (1999) Effect of light and zooplankton on delta C-13 in the eastern Pacific corals Pavona clavus and Pavona gigantean. Coral Reefs 18:29–41

    Article  Google Scholar 

  • Grover R, Maguer JF, Allemand D, Ferrier-Pages C (2003) Nitrate uptake in the scleractinian coral Stylophora pistillata. Limnol Oceanogr 48:2266–2274

    Article  CAS  Google Scholar 

  • Grover R, Maguer JF, Allemand D, Ferrier-Pages C (2008) Uptake of dissolved free amino acids (DFAA) by the scleractinian coral Stylophora pistillata. J Exp Biol 211:860–865

    Article  CAS  PubMed  Google Scholar 

  • Gustafsson MSM, Baird ME, Ralph PJ (2013) The interchangeability of autotrophic and heterotrophic nitrogen sources in Scleractinian coral symbiotic relationships: a numerical study. Ecol Model 250:183–194

    Article  CAS  Google Scholar 

  • Gustafsson MSM, Baird ME, Ralph PJ (2014) Modeling photoinhibition-driven bleaching in Scleractinian coral as a function of light, temperature, and heterotrophy. Limnol Oceanogr 59:603–622

    Article  Google Scholar 

  • Hasumi H, Nagata T (2014) Modeling the global cycle of marine dissolved organic matter and its influence on marine productivity. Ecol Model 288:9–24

    Article  CAS  Google Scholar 

  • Hoegh-Guldberg O (1999) Climate change, coral bleaching and the future of the world’s coral reefs. Mar Freshw Res 50:839–866

    Google Scholar 

  • Hoegh-Guldberg O, Smith GJ (1989) Influence of the population density of zooxanthellae and supply of ammonium on the biomass and metabolic characteristics of the reef corals Seriatopora hystrix and Stylophora pistillata. Mar Ecol Prog Ser 57:173–186

    Article  CAS  Google Scholar 

  • 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

    Article  CAS  PubMed  Google Scholar 

  • Hofmann EE, Cahill B, Fennel K, Friedrichs MAM, Hyde K, Lee C, Mannino A, Najjar RG, O’Reilly JE, Wilkin J, Xue HJ (2011) Modeling the dynamics of continental shelf carbon. Annu Rev Mar Sci 3:93–122

    Article  Google Scholar 

  • Hohn S, Merico A (2012) Modelling coral polyp calcification in relation to ocean acidification. Biogeosciences 9:4441–4454

    Article  CAS  Google Scholar 

  • Hohn S, Merico A (2015) Quantifying the relative importance of transcellular and paracellular ion transports to coral polyp calcification. Front Earth Sci 2(37). https://doi.org/10.3389/feart.2014.00037

  • Holmes G, Johnstone RV (2010) The role of coral mortality in nitrogen dynamics on coral reefs. J Exp Mar Biol Ecol 387:1–8

    Article  CAS  Google Scholar 

  • Houlbreque F, Ferrier-Pages C (2009) Heterotrophy in tropical scleractinian corals. Biol Rev 84:1–17

    Article  PubMed  Google Scholar 

  • Jantzen C, Schmidt GM, Wild C, Roder C, Khokiattiwong S, Richter C (2013) Benthic reef primary production in response to large amplitude internal waves at the Similan Islands (Andaman Sea, Thailand). PLoS One 8:e81834. https://doi.org/10.1371/journal.pone.0081834

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Jones R, Hoegh-Guldberg O, Larkum AWL, Schreiber U (1998) Temperature induced bleaching of corals begins with impairment of dark metabolism in zooxanthellae. Plant Cell Environ 21:1219–1230

    Article  CAS  Google Scholar 

  • Kan H, Hori N, Kawana T, Kaigara T, Ichikawa K (1997) The evolution of a Holocene fringing reef and island: Reefal environmental sequence and sea level change in Tonaki Island, the Central Ryukyus. Atoll Res Bull 443:1–20

    Article  Google Scholar 

  • Kayanne H, Hata H, Kudo S, Yamano H (2005) Seasonal and bleaching-induced changes in coral reef metabolism and CO2 flux. Global Biogeochem Cycles 19:GB3015. https://doi.org/10.1029/2004GB002400

    Article  CAS  Google Scholar 

  • Khalesi MK, Beeftink HH, Wijffels RH (2011) Energy budget for the cultured zooxanthellate octocoral Sinularia flexibilis. Mar Biotechnol 13:1092–1098

    Article  CAS  Google Scholar 

  • Kleypas JA, Anthony K, Gattuso JP (2011) Coral reefs modify seawater carbon chemistry – case study from a barrier reef (Moorea, French Polynesia). Glob Chang Biol 17:3667–3678

    Article  Google Scholar 

  • Koop K, Booth D, Broadbent A, Brodie J, Bucher D, Capone D, Coll J, Dennison W, Larkum AWD, O’Neil J, Steven A, Tentori E, Ward S, Williamson J, Yellowlees D (2001) ENCORE: the effect of nutrient enrichment on coral reefs. Synthesis of results and conclusions. Mar Pollut Bull 42:91–120

    Article  CAS  PubMed  Google Scholar 

  • Koweek D, Dunbar RB, Monismith SG, Mucciarone DA, Woodson CB, Samuel L (2015) High-resolution physical and biogeochemical variability from a shallow back reef on Ofu, American Samoa: an end-member perspective. Coral Reefs 34:979–991

    Article  Google Scholar 

  • Kraines S, Suzuki Y, Omori T, Shitashima K, Kanahara S, Komiyama H (1997) Carbonate dynamics of the coral reef system at Bora Bay, Miyako Island. Mar Ecol Prog Ser 156:1–16

    Article  CAS  Google Scholar 

  • Kwiatkowski L, Albright R, Hosfelt J, Nebuchina Y, Ninokawa A, Rivlin T, Seboue M, Wolfe K, Caldeira K (2016) Interannual stability of organic to inorganic carbon production on a coral atoll. Geophys Res Lett 43:3880–3888. https://doi.org/10.1002/2016GL068723

    Article  CAS  Google Scholar 

  • Langdon C, Atkinson MJ (2005) Effect of elevated pCO2 on photosynthesis and calcification of corals and interactions with seasonal changes in temperature/irradiance and nutrient enrichment. J Geophys Res 110:C09S07. https://doi.org/10.1029/2004JC002576

    Article  CAS  Google Scholar 

  • Lantz CA, Atkinson MJ, Winn CW, Kahng SE (2014) Dissolved inorganic carbon and total alkalinity of a Hawaiian fringing reef: chemical techniques for monitoring the effects of ocean acidification on coral reefs. Coral Reefs 33:105–115

    Article  Google Scholar 

  • Lerman A (1978) Chemical exchange across sediment-water interface. Annu Rev Earth Planet Sci 6:281–303

    Article  CAS  Google Scholar 

  • Lesser MP (1996) Elevated temperature and ultraviolet radiation cause oxidative stress and inhibit photosynthesis on symbiotic dinoflagellates. Limnol Oceanogr 41:271–283

    Article  CAS  Google Scholar 

  • Levas S, Grottoli AG, Warner ME, Cai WJ, Bauer J, Schoepf V et al (2015) Organic carbon fluxes mediated by corals at elevated Pco2 and temperature. Mar Ecol Prog Ser 519:153–164. https://doi.org/10.3354/meps11072

    Article  CAS  Google Scholar 

  • Levy O, Karako-Lampert S, Ben-Asher HW, Zoccola D, Pages G, Ferrier-Pages C (2016) Molecular assessment of the effect of light and heterotrophy in the scleractinian coral Stylophora pistillata. Proc R Soc B 283:20153025

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Li Y, Wang DR, Su J, Zhang J (2013) Impact of monsoon-driven circulation on phytoplankton assemblages near fringing reefs along the east coast of Hainan Island, China. Deep Sea Res II 96:75–87

    Article  Google Scholar 

  • Li XB, Wang DR, Huang H, Zhang J, Lian JS, Yuan XC, Zhang GS (2015) Linking benthic community structure to terrestrial runoff and upwelling in the coral reefs of northeastern Hainan Island. Estu Coast Shelf Sci 156:92–102

    Article  CAS  Google Scholar 

  • Li XB, Titlyanov EA, Zhang J, Titlyanova TV, Zhang GS, Huang H (2016) Macroalgal assemblage changes on coral reefs along a natural gradient from fish farms in southern Hainan Island. Aquat Ecosyst Health Manag 19:74–82

    Article  CAS  Google Scholar 

  • Lough JM (2012) Small changes, big difference: sea surface temperature distributions for tropical coral reef ecosystems, 1950-2011. J Geophys Res 117:C09018. https://doi.org/10.1029/2012JC008199

    Article  Google Scholar 

  • Martias C, Tedetti M, Lantoine F, Jamet L, Dupouy C (2018) Characterization and sources of colored dissolved organic matter in a coral reef ecosystem subject to ultramafic erosion pressure (New Caledonia, Southwest Pacific). Sci Total Environ 616–617:438–452

    Article  PubMed  CAS  Google Scholar 

  • Marubini F, Atkinson MJ (1999) Effects of lowered pH and elevated nitrate on coral calcification. Mar Ecol Prog Ser 188:117–121

    Article  CAS  Google Scholar 

  • Marubini F, Davies PS (1996) Nitrate increases zooxanthellae population and reduces skeletogenesis in corals. Mar Biol 127:319–328

    Article  CAS  Google Scholar 

  • McConnaughey TA, Falk RH (1991) Calcium-proton exchange during algal calcification. Biol Bull 180:185–195

    Article  CAS  PubMed  Google Scholar 

  • McConnaughey TA, Whelan JF (1997) Calcification generates protons for nutrient and bicarbonate uptake. Earth Sci Rev 42:95–117

    Article  CAS  Google Scholar 

  • McCulloch M, Fallon S, Wyndham T, Hendy E, Lough J, Barnes D (2003) Coral record of increased sediment flux to the inner Great Barrier Reef since European settlement. Nature 421:727–730

    Article  CAS  PubMed  Google Scholar 

  • McMahon A, Santos IR, Cyronak T, Eyre BD (2013) Hysteresis between coral reef calcification and the seawater aragonite saturation state. Geophys Res Lett 40:4675–4679. https://doi.org/10.1002/grl.50802

    Article  CAS  Google Scholar 

  • Moore WS (2010) The effect of submarine groundwater discharge on the ocean. Annu Rev Mar Sci 2:59–88

    Article  Google Scholar 

  • Muller EB, Kooijman SALM, Edmunds PJ, Doyle FJ, Nisbet RM (2009) Dynamic energy budgets in syntrophic symbiotic relationships between heterotrophic hosts and photoautotrophic symbionts. J Theor Biol 259:44–57

    Article  PubMed  Google Scholar 

  • Muller-Parker G, McCloskey LR, Hoegh-Guldberg O, McAuley PJ (1994) Effect of ammonium enrichment on animal and algal biomass of the coral P. damicornis. Pacific Sci 48:273–283

    CAS  Google Scholar 

  • Mueller B, de Goeij JM, Vermeij MJ, Mulders Y, van der Ent E, Ribes M, van Duyl FC (2014) Natural diet of coral–excavating sponges consists mainly of dissolved organic carbon (DOC). PLoS One 9(2):e90152

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Muscatine L, D’elia C (1978) The uptake, retention, and release of ammonium by reef corals. Limnol Oceanogr 23:725–734

    Article  CAS  Google Scholar 

  • Muscatine L, Weis V (1992) Productivity of zooxanthellae and biogeochemical cycles. In: Falkowski PG, Woodhead AD (eds) Primary productivity and biogeochemical cycles in the sea. Plenum Press, New York, pp 257–271

    Chapter  Google Scholar 

  • Muscatine L, McCloskey LR, Marian RE (1981) Estimating the daily contribution of carbon from zooxanthellae to coral animal respiration. Limnol Oceanogr 26:601–611

    Article  CAS  Google Scholar 

  • Muscatine L, Falkowski P, Porter J, Dubinsky Z (1984) Fate of photosynthetic fixed carbon in light- and shade-adapted colonies of the symbiotic coral Stylophora pistillata. Proc R Soc B 222:181–202

    CAS  Google Scholar 

  • Nakamura T, Nakamori T (2007) A geochemical model for coral reef formation. Coral Reefs 26:741–755

    Article  Google Scholar 

  • Nakamura T, Nadaoka K, Watanabe A (2013) A coral polyp model of photosynthesis, respiration and calcification incorporating a transcellular ion transport mechanism. Coral Reefs 32:779–794

    Article  Google Scholar 

  • Naumann MS, Jantzen C, Haas AF, Iglesias-Prieto R, Wild C (2013) Benthic primary production budget of a Caribbean reef lagoon (Puerto Morelos, Mexico). PLoS One 8:e82923. https://doi.org/10.1371/journal.pone.0082923

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Nobes K, Uthicke S, Henderson R (2008) Is light the limiting factor for the distribution of benthic symbiont bearing foraminifera on the Great Barrier Reef? J Exp Mar Biol Ecol 363:48–57

    Article  Google Scholar 

  • Norzagaray CO, Hernandez-Ayon JM, Castro R, Calderon-Aguilera LE, Martz T, Valdivieso-Ojeda JA, Lara-lara R (2020) Seasonal controls of the carbon biogeochemistry of a fringing coral reef in the Gulf of California, Mexico. Cont Shelf Res 211:1–4279

    Article  Google Scholar 

  • Ostrander GK, Armstrong KM, Knobbe ET, Gerace D, Scully EP (2000) Rapid transition in the structure of a coral reef community: the effects of coral bleaching and physical disturbance. PNAS 97:5297–5302

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Palardy JE, Grottoli AG, Matthews KA (2005) Effects of upwelling, depth, morphology and polyp size on feeding in three species of Panamanian corals. Mar Ecol Prog Ser 300:79–89

    Article  Google Scholar 

  • Palardy JE, Grottoli AG, Matthews KA (2006) Effect of naturally changing zooplankton concentrations on feeding rates of two coral species in the eastern Pacific. J Exp Mar Biol Ecol 331:99–107

    Article  Google Scholar 

  • Paringit E, Nadaoka K (2011) Simultaneous estimation of benthic fractional cover and shallow water bathymetry in coral reef areas from high-resolution satellite images. Int J Remote Sens 33:3026–3047

    Article  Google Scholar 

  • Patten N, Wyatt A, Lowe R, Waite AM (2011) Uptake of picophytoplankton, bacterioplankton and virioplankton by a fringing coral reef community (Ningaloo Reef, Australia). Coral Reefs 30:555–567

    Article  Google Scholar 

  • Pennisi E (2021) A half-trillion corals live in just one ocean. Does that mean they are safe? Science. https://doi.org/10.1126/science.abh37779

  • Pupier CA, Fine M, Bednarz VN, Rottier C, Grover R, Ferrier-Pagès C (2019) Productivity and carbon fluxes depend on species and symbiont density in soft coral symbioses. Sci Rep 9(1):1–10

    Article  CAS  Google Scholar 

  • Radice VZ, Fry B, Dove SG, Hoegh-Guldberg O (2020) Biogeochemical variability and trophic status of reef water column following a coral bleaching event. Coral Reefs. https://doi.org/10.1007/s00338-020-02021-6

  • Reidenbach MA, Monismith SG, Koseff JR, Yahel G, Genin A (2006) Boundary layer turbulence and flow structure over a fringing coral reef. Limnol Oceanogr 51:1956–1968

    Article  Google Scholar 

  • Ren HJ, Chen Y-C, Wang XCT, Wong GTF, Cohen AL, DeCarlo TM, Weigand MA, Mii H-S, Sigman DM (2017) 21st-century rise in anthropogenic nitrogen deposition on a remote coral reef. Science 356:749–752

    Article  CAS  PubMed  Google Scholar 

  • Roder C, Wu ZJ, Richter C, Zhang J (2013) Coral reef degradation and metabolic performance of the scleractinian coral Porites lutea under anthropogenic impact along the NE coast of Hainan Island, South China Sea. Cont Shelf Res 57:123–131

    Article  Google Scholar 

  • Rodrigues L, Grottoli AG (2007) Energy reserves and metabolism as indicators of coral recovery from bleaching. Limnol Oceanogr 52:1874–1882

    Article  Google Scholar 

  • Rosenfeld M, Bresler V, Abelson A (1999) Sediment as a possible source of food for corals. Ecol Lett 2:345–348

    Article  Google Scholar 

  • Ross ON, Geider RJ (2009) New cell-based model of photosynthesis and photo-acclimation: accumulation and mobilisation of energy reserves in phytoplankton. Mar Ecol Prog Ser 383:53–71

    Article  CAS  Google Scholar 

  • Sarmiento JL, Gruber N (2006) Ocean biogeochemical dynamics. Princeton, Princeton University Press, p 503

    Book  Google Scholar 

  • Scheffers SR, Nieuwland G, Bak RPM, van Duly FC (2004) Removal of bacteria and nutrient dynamics within the coral reef framework of Curacao (Netherlands Antilles). Coral Reefs 23:413–422

    Article  Google Scholar 

  • Shamberger KEF, Feely RA, Sabine CL, Atkinson MJ, DeCarlo EH, Mackenzie FT, Drupp PS, Butterfield DA (2011) Calcification and organic production on a Hawaiian coral reef. Mar Chem 127(1–4):64–75

    Article  CAS  Google Scholar 

  • Shen PP, Tan YH, Huang LM, Zhang JL, Yin JQ (2010) Occurrence of brackish water phytoplankton species at a closed coral reef in Nansha Islands, South China Sea. Mar Pollut Bull 60:1718–1725

    Article  CAS  PubMed  Google Scholar 

  • Sheppard CRC, Davy SK, Pilling GM (2009) The biology of coral reefs. Oxford University Press, New York, p 247

    Book  Google Scholar 

  • Silverman J, Lazar B, Erez J (2007a) Effect of aragonite saturation, temperature, and nutrients on the community calcification rate of a coral reef. J Geophys Res 112:C05004. https://doi.org/10.1029/2006JC003770

    Article  CAS  Google Scholar 

  • Silverman J, Lazar B, Erez J (2007b) Community metabolism of a coral reef exposed to naturally varying dissolved inorganic nutrient loads. Biogeochemistry 84:67–82

    Article  CAS  Google Scholar 

  • Silverman J, Schneider K, Kline DI, Rivlin T, Rivlin A, Hamylton S, Lazar B, Erez J (2014) Community calcification in Lizard Island, Great Barrier Reef: a 33 year perspective. Geochim Cosmochim Acta 144:72–81

    Article  CAS  Google Scholar 

  • Stambler N, Popper N, Dubinsky Z, Stimson J (1991) Effect of nutrient enrichment and water motion on the coral Pocillopora damicornis. Pacific Sci 45:299–307

    Google Scholar 

  • Stimson J (1997) The annual cycle of density of zooxanthellae in the tissues of field and laboratory–held Pocillopora damicornis (Linnaeus). J Exp Mar Biol Ecol 214:35–34

    Article  Google Scholar 

  • Street JH, Knee KL, Grossman EE, Paytan A (2008) Submarine groundwater discharge and nutrient addition to the coastal zone and coral reefs of leeward Hawaii. Mar Chem 109:355–376

    Article  CAS  Google Scholar 

  • Sültemeyer D, Rinast K (1996) The CO2 permeability of the plasma membrane of Chlamydomonas reinhardtii: massspectrometric 18O-exchange measurements from 13C18O2 in suspensions of carbonic anhydrase loaded plasma membrane vesicles. Planta 200:358–368

    Article  Google Scholar 

  • Suzuki Y, Casareto E (2011) The role of dissolved organic nitrogen (DON) in coral biology and reef ecology. In: Dubinsky Z, Stambler N (eds) Coral reefs: an ecosystem in transition. Springer, Dordrecht, pp 207–214

    Chapter  Google Scholar 

  • Suzuki A, Kawahata H (2003) Carbon budget of coral reef systems: An overview of observations in fringing reefs, barrier reefs, and atolls in the Indo-Pacific region. Tellus B 55:428–444

    Article  Google Scholar 

  • Szmant AM (2002) Nutrient enrichment on coral reefs: is it a major cause of coral reef decline? Estuaries 25:743–766

    Article  CAS  Google Scholar 

  • Tac-An N, Minh-Thu P, Cherbadji II, Propp MV, Odintsov VS, Propp LH (2013) Primary production of coral ecosystems in the Vietnamese coastal and adjacent marine waters. Deep Sea Res II 96:56–64

    Article  Google Scholar 

  • Takahashi T, Sutherland SC, Sweeney C, Poisson A, Metzl N, Tilbrook B, Bates N, Wanninkhof R, Feely RA, Sabine C, Olafsson J, Nojiri Y (2002) Global sea-air pCO2 flux based on climatological surface ocean pCO2, and seasonal biological and temperature effects. Deep Sea Res II 49:1601–1622

    Article  CAS  Google Scholar 

  • Tanaka Y, Ogawa H, Miyajima T (2011) Production and bacterial decomposition of dissolved organic matter in a fringing coral reef. J Oceanogr 67:427–437

    Article  CAS  Google Scholar 

  • Uthicke S, Furnas M, Lonborg C (2014) Coral reefs on the edge? Carbon chemistry on inshore reefs of the Great Barrier Reef. PLoS One 9:e109092. https://doi.org/10.1371/journal.pone.0109092

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Veron JEN, Hoegh-Guldberg O, Lenton TM, Lough JM, Obura DO, Pearce-Kelly P, Sheppard CRC, Spalding M, Stafford-Smith MG, Rogers AD (2009) The coral reef crisis: the critical importance of <350 ppm CO2. Mar Pollut Bull 58:1428–1436

    Article  CAS  PubMed  Google Scholar 

  • Viyakarn V, Lalitpattarakit W, Chinfak N, Jandang S, Kuanui P, Khokiattiwong S, Chavanich S (2015) Effect of lower pH on settlement and development of coral, Pocillopora damicornis (Linnaeus, 1758). Ocean Sci J 50:475–480

    Article  CAS  Google Scholar 

  • Wilkinson C (ed) (2008) Status of coral reefs of the world: 2008. Global Coral Reef Monitoring Network and Reef and Rainforest Research Centre, Townsville, Australia, p 298

    Google Scholar 

  • Wu ML, Dong JD, Wang YS (2017) Identification of seawater quality by multivariate statistical analysis in Xisha Islands, South China Sea. In: Tutu H (ed) Water quality. InTech Press, Rijeka, Croatia, pp 159–168

    Google Scholar 

  • Wyatt ASJ, Lowe RJ, Humphries S, Waite AM (2010) Particulate nutrient fluxes over a fringing coral reef: relevant scales of phytoplankton production and mechanisms of supply. Mar Ecol Prog Ser 405:113–130

    Article  CAS  Google Scholar 

  • Wyatt AS, Falter JL, Lowe RJ, Humphries S, Waite AM (2012) Oceanographic forcing of nutrient uptake and release over a fringing coral reef. Limnol Oceanogr 57:401–419

    Article  CAS  Google Scholar 

  • Yamano H, Abe O, Kitagawa H, Niu E, Nakamura T (2001) Coral reef evolution at the leeward side of Ishigaki Island, Southwest Japan. Radiocarbon 43:899–908

    Article  CAS  Google Scholar 

  • Yan HQ, Yu KF, Shi Q, Tan YH, Zhang HL, Zhao MX, Li S, Chen TR, Huang LY, Wang PX (2011) Coral reef ecosystems in the South China Sea as a source of atmospheric CO2 in summer. Chin Sci Bull 56:676–684

    Article  CAS  Google Scholar 

  • Yates KK, Halley RB (2003) Measuring coral reef community metabolism using new benthic chamber technology. Coral Reefs 22:247–255

    Article  Google Scholar 

  • Yeakel KL, Andersson AJ, Bates NR, Noyes TJ, Collins A, Garley R (2015) Shifts in coral reef biogeochemistry and resulting acidification linked to offshore productivity. PNAS 112:14512–14517

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Zhang J (2016) Coastal bio-geochemical cycles. In: Harff J, Meschede M, Petersen S, Thiede J (eds) Encyclopedia of marine geosciences. Springer, Dordrecht, pp 93–99

    Chapter  Google Scholar 

  • Zhang CL, Huang H, Ye C, Huang LM, Li XB, Lian JS, Liu S (2013) Diurnal and seasonal variations of carbonate system parameters on Luhuitou fringing reef, Sanya Bay. Deep Sea Res II 96:65–74

    Article  CAS  Google Scholar 

  • Zhou J, Huang H, Beardall J, Gao KS (2017) Effect of UV radiation on the expulsion of Symbiodinium from the coral Pocillopora damicornis. J Photochem Photobiol B 166:12–17

    Article  CAS  PubMed  Google Scholar 

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Acknowledgments

This work forms part of a research initiative of UNESCO/IOC-WESTPAC-Sub-Commission on “Coral Reefs under Climate and Anthropogenic Perturbations” (i.e., IOC/WESTPAC-CorReCAP Project) that was formally adopted on its 7th Inter-Governmental Session at Sabah of Malaysia in May 26–28, 2008. We would like to express our gratitude to the IOC/WESTPAC Secretary Office at Bangkok of Thailand and the State Oceanic Administration of China (Beijing) for the guidance and financial supports to the activities of IOC/WESTPAC-CorReCAP Project. The Natural Science Foundation of China (NSFC Nos.: 40830850 and 41476134) is acknowledged for the fundings to support our coral reef studies.

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Authors and Affiliations

  1. State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai, China

    Jing Zhang, Yi Xu & Wei Zheng

  2. School of Oceanography, Shanghai Jiao Tong University, Shanghai, China

    Jing Zhang

  3. Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Guangzhou, China

    Hui Huang

  4. State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, China

    Xiu Bao Li

  5. Hainan Tropical Ocean University, Sanya, China

    Dao Ru Wang

  6. Hainan Academy of Ocean and Fisheries Sciences, Haikou, China

    Dao Ru Wang

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  4. Xiu Bao Li
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  5. Wei Zheng
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  6. Dao Ru Wang
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Correspondence to Jing Zhang .

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Editors and Affiliations

  1. State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai, China

    Jing Zhang

  2. Marine Biodiversity Research Group, Department of Biology, Faculty of Science, Ramkhamhaeng University, Bangkok, Thailand

    Thamasak Yeemin

  3. School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, NSW, Australia

    R. John Morrison

  4. State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai, China

    Gi Hoon Hong

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Zhang, J., Xu, Y., Huang, H., Li, X.B., Zheng, W., Wang, D.R. (2022). Biogeochemical Dynamics of Coral Reef Systems. In: Zhang, J., Yeemin, T., Morrison, R.J., Hong, G.H. (eds) Coral Reefs of the Western Pacific Ocean in a Changing Anthropocene. Coral Reefs of the World, vol 14. Springer, Cham. https://doi.org/10.1007/978-3-030-97189-2_5

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