T. D. Ainsworth, L. Krause, T. Bridge, G. Torda, J. Raina et al., The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts, The ISME Journal, vol.9, issue.10, pp.2261-2274, 2015.
DOI : 10.3389/fmicb.2012.00316

T. D. Ainsworth, R. V. Thurber, and R. D. Gates, The future of coral reefs: a microbial perspective, Trends in Ecology & Evolution, vol.25, issue.4, 2010.
DOI : 10.1016/j.tree.2009.11.001

D. M. Alongi, J. Pfitzner, and L. A. Trott, Deposition and cycling of carbon and nitrogen in carbonate mud of the lagoons of Arlington and Sudbury Reefs, Great Barrier Reef, Coral Reefs, vol.428, issue.1, pp.123-143, 2006.
DOI : 10.2475/ajs.290.6.601

A. Apprill, H. Q. Marlow, M. Q. Martindale, and R. M. , The onset of microbial associations in the coral Pocillopora meandrina, The ISME Journal, vol.25, issue.6, pp.685-699, 2009.
DOI : 10.1016/j.syapm.2008.07.001

M. J. Atkinson and R. W. Bilger, Effects of water velocity on phosphate uptake in coral reef-flat communities, Limnol. Oceanogr, vol.37, 1992.

J. Barcelos-e-ramos, H. Biswas, K. G. Schulz, J. Laroche, and U. Riebesell, Effect of rising atmospheric carbon dioxide on the marine nitrogen fixer Trichodesmium, Glob. Biogeochem. Cycles, vol.21, p.10, 1029.

K. L. Barott, G. J. Williams, M. Vermeij, J. Harris, J. E. Smith et al., Natural history of coral???algae competition across a gradient of human activity in the Line Islands, Marine Ecology Progress Series, vol.460, pp.1-12, 2012.
DOI : 10.3354/meps09874

V. N. Bednarz, U. Cardini, N. Van-hoytema, M. Al-rshaidat, C. V. Wild et al., Seasonal variation in dinitrogen fixation and oxygen fluxes associated with two dominant zooxanthellate soft corals from the northern Red Sea, Marine Ecology Progress Series, vol.519, issue.8, pp.141-152, 1128.
DOI : 10.3354/meps11091

V. N. Bednarz, N. Van-hoytema, U. Cardini, M. S. Naumann, M. Al-rshaidat et al., Dinitrogen fixation and primary productivity by carbonate and silicate reef sand communities of the Northern Red Sea, Marine Ecology Progress Series, vol.527, pp.47-57, 2015.
DOI : 10.3354/meps11224

P. Bell, I. Elmetri, and P. Uwins, Nitrogen fixation by Trichodesmium spp. in the Central and Northern Great Barrier Reef Lagoon: relative importance of the fixed-nitrogen load, Mar. Ecol. Prog. Ser, vol.1863354, pp.119-126, 1999.

M. Benavides, N. Agawin, J. Arístegui, P. Ferriol, and L. J. Stal, Nitrogen fixation by Trichodesmium and small diazotrophs in the subtropical northeast Atlantic, Aquatic Microbial Ecology, vol.65, issue.1, pp.43-53, 1534.
DOI : 10.3354/ame01534
URL : https://hal.archives-ouvertes.fr/hal-00999284

M. Benavides, J. Arístegui, N. S. Agawin, J. López-cancio, and S. Hernández-león, after a dust deposition event in the Canary Islands, Limnology and Oceanography, vol.58, issue.1, pp.267-275, 2013.
DOI : 10.4319/lo.2013.58.1.0267
URL : https://hal.archives-ouvertes.fr/hal-00999282

M. Benavides, F. Houlbrèque, M. Camps, A. Lorrain, O. Grosso et al., Diazotrophs: a non-negligible source of nitrogen for the tropical coral Stylophora pistillata, J. Exp. Biol, 2016.
URL : https://hal.archives-ouvertes.fr/hal-01483200

E. Béraud, F. Gevaert, C. Rottier, and C. Ferrier-pagès, The response of the scleractinian coral Turbinaria reniformis to thermal stress depends on the nitrogen status of the coral holobiont, Journal of Experimental Biology, vol.216, issue.14, pp.2665-2674, 2013.
DOI : 10.1242/jeb.085183

I. Berman-frank, P. Lundgren, and P. Falkowski, Nitrogen fixation and photosynthetic oxygen evolution in cyanobacteria, Research in Microbiology, vol.154, issue.3, pp.157-164, 2003.
DOI : 10.1016/S0923-2508(03)00029-9

H. Berthelot, S. Bonnet, M. Camps, O. Grosso, and T. Moutin, Assessment of the dinitrogen released as ammonium and dissolved organic nitrogen by unicellular and filamentous marine diazotrophic cyanobacteria grown in culture, Frontiers in Marine Science, vol.412, issue.229, 2015.
DOI : 10.1038/35088063

D. Bombar, R. W. Paerl, and L. And-riemann, Marine Non-Cyanobacterial Diazotrophs: Moving beyond Molecular Detection, Trends in Microbiology, vol.24, issue.11, pp.916-927, 2016.
DOI : 10.1016/j.tim.2016.07.002

S. Bonnet, H. Berthelot, K. Turk-kubo, V. Cornet-barthaux, S. Fawcett et al., Diazotroph derived nitrogen supports diatom growth in the South West Pacific: A quantitative study using nanoSIMS, Limnology and Oceanography, vol.322, issue.1, pp.1549-1562, 2016.
DOI : 10.1126/science.1165340
URL : https://hal.archives-ouvertes.fr/hal-01443231

S. Bonnet, I. C. Biegala, P. Dutrieux, L. O. Slemons, C. et al., Nitrogen fixation in the western equatorial Pacific: Rates, diazotrophic cyanobacterial size class distribution, and biogeochemical significance, Contrasted geographical distribution of N 2 fixation rates and nifH phylotypes in the Coral and Solomon Seas (southwestern Pacific) during austral winter conditions, pp.10-1029, 1002.
DOI : 10.1126/science.1165340

D. G. Bourne and C. B. Munn, Diversity of bacteria associated with the coral Pocillopora damicornis from the Great Barrier Reef, Environmental Microbiology, vol.273, issue.8, 2005.
DOI : 10.1007/978-3-662-06414-6_3

D. G. Bourne, K. M. Morrow, and N. S. Webster, Insights into the Coral Microbiome: Underpinning the Health and Resilience of Reef Ecosystems, Annual Review of Microbiology, vol.70, issue.1, pp.317-340, 2016.
DOI : 10.1146/annurev-micro-102215-095440

D. Bourne, Y. Iida, S. Uthicke, and C. Smith-keune, Changes in coral-associated microbial communities during a bleaching event, The ISME Journal, vol.64, issue.4, pp.350-363112, 2007.
DOI : 10.1007/BF00265014

D. Böttjer, J. E. Dore, D. M. Karl, R. M. Letelier, C. Mahaffey et al., Temporal variability of nitrogen fixation and particulate nitrogen export at Station ALOHA, Limnology and Oceanography, vol.3, issue.1, pp.200-216, 2016.
DOI : 10.1146/annurev-marine-120709-142819

B. E. Brown, J. C. Bythell, M. Benavides, K. A. Lema, O. Grosso et al., Perspectives on mucus secretion in reef corals Released coral mucus does not enhance planktonic N 2 fixation rates, Mar. Ecol. Prog. Ser. Aquat. Microb. Ecol, vol.2963354, issue.77, pp.291-309, 1787.

D. G. Capone, Determination of nitrogenase activity in aquatic samples using the acetylene reduction procedure, " in Handbook of Methods in Aquatic Microbial Ecology, p.800, 1993.

D. G. Capone, Marine nitrogen fixation: what's the fuss?, Current Opinion in Microbiology, vol.4, issue.3, pp.341-348, 2001.
DOI : 10.1016/S1369-5274(00)00215-0

D. G. Capone and E. J. Carpenter, Nitrogen Fixation in the Marine Environment, Science, vol.217, issue.4565, 1982.
DOI : 10.1126/science.217.4565.1140

D. G. Capone and E. J. Carpenter, Nitrogen Fixation by Marine Cyanobacteria: Historical and Global Perspectives. Bulletin de l'Institut océanographique. Available online at, 1999.

D. G. Capone and A. N. Knapp, Oceanography: A marine nitrogen cycle fix?, Nature, vol.43, issue.7124, pp.159-160, 2007.
DOI : 10.1073/pnas.0600756103

D. G. Capone, D. L. Taylor, T. , and B. F. , Nitrogen fixation (acetylene reduction) associated with macroalgae in a coral-reef community in the Bahamas, Marine Biology, vol.188, issue.1, pp.29-32, 1007.
DOI : 10.1007/BF00390624

U. Cardini, V. N. Bednarz, and R. A. Foster, fixation in coral reefs and the potential effects of human-induced environmental change, Ecology and Evolution, vol.5, issue.110, pp.1706-1727, 2014.
DOI : 10.1046/j.1462-2920.2003.00451.x

U. Cardini, V. N. Bednarz, M. S. Naumann, N. Van-hoytema, L. Rix et al., Functional significance of dinitrogen fixation in sustaining coral productivity under oligotrophic conditions, Proceedings of the Royal Society B: Biological Sciences, vol.39, issue.1818, 2015.
DOI : 10.1016/j.cosust.2013.11.029

U. Cardini, V. N. Bednarz, N. Van-hoytema, A. Rovere, M. S. Naumann et al., Budget of Primary Production and Dinitrogen Fixation in a Highly Seasonal Red Sea Coral Reef, Ecosystems, vol.58, issue.5, pp.771-785, 2016.
DOI : 10.1016/j.marpolbul.2008.12.013

U. Cardini, N. Van-hoytema, V. N. Bednarz, L. Rix, R. A. Foster et al., Microbial dinitrogen fixation in coral holobionts exposed to thermal stress and bleaching, Environmental Microbiology, vol.396, issue.310, pp.2620-2633, 2016.
DOI : 10.3354/meps08310

B. E. Casareto, L. Charpy, M. J. Langlade, T. Suzuki, H. Ohba et al., Nitrogen fixation in coral reef environments, Proceedings of the 11th International Coral Reef Symposium, pp.896-900, 2008.

J. Ceh, M. R. Kilburn, J. B. Cliff, J. Raina, M. Van-keulen et al., ) with nitrogen acquired from bacterial associates, Ecology and Evolution, vol.31, issue.8, pp.2393-2400, 2013.
DOI : 10.1111/j.1365-3040.2008.01802.x

J. Ceh, M. Van-keulen, D. G. Bourne, R. Alliod, M. Rodier et al., Intergenerational transfer of specific bacteria in corals and possible implications for offspring fitness Benthic nitrogen fixation in the SW New Caledonia lagoon, Microb. Ecol. Aquat. Microb. Ecol, vol.653354, issue.47, pp.227-231, 2007.

L. Charpy, K. A. Palinska, R. M. Abed, M. J. Langlade, and S. Golubic, Factors influencing microbial mat composition, distribution and dinitrogen fixation in three western Indian Ocean coral reefs, European Journal of Phycology, vol.83, issue.38, pp.51-66653652, 2011.
DOI : 10.4319/lo.1994.39.8.1985

C. Charpy-roubaud and A. W. Larkum, Dinitrogen fixation by exposed communities on the rim of Tikehau atoll (Tuamotu Archipelago, French Polynesia), Coral Reefs, vol.226, issue.4, pp.622-628, 2005.
DOI : 10.1007/978-1-4684-7612-5_8

C. Charpy-roubaud, L. Charpy, and A. Larkum, Atmospheric dinitrogen fixation by benthic communities of Tikehau Lagoon (Tuamotu Archipelago, French Polynesia) and its contribution to benthic primary production, Mar. Biol, vol.139, pp.991-998, 1007.

A. J. Cheal, M. A. Macneil, E. Cripps, M. J. Emslie, M. Jonker et al., Coral???macroalgal phase shifts or reef resilience: links with diversity and functional roles of herbivorous fishes on the Great Barrier Reef, Coral Reefs, vol.376, issue.1, pp.1005-1015, 2010.
DOI : 10.3354/meps07790

C. Chen, C. Tseng, C. A. Chen, and S. Tang, The dynamics of microbial partnerships in the coral Isopora palifera, The ISME Journal, vol.175, issue.4, pp.728-740, 2010.
DOI : 10.1126/science.289.5485.1724

L. A. Chimetto, M. Brocchi, C. C. Thompson, R. C. Martins, H. R. Ramos et al., Vibrios dominate as culturable nitrogen-fixing bacteria of the Brazilian coral Mussismilia hispida, Systematic and Applied Microbiology, vol.31, issue.4, pp.312-319, 2008.
DOI : 10.1016/j.syapm.2008.06.001

J. H. Connell, Diversity in Tropical Rain Forests and Coral Reefs, Science, vol.199, issue.4335, 1978.
DOI : 10.1126/science.199.4335.1302

R. Constanza, R. Arge, R. De-groot, S. Faber, M. Grasso et al., The value of the world's ecosystem services and natural capital, Nature, vol.387, issue.6630, pp.253-260, 1038.
DOI : 10.1038/387253a0

C. J. Crossland and D. J. Barnes, Acetylene reduction by coral skeletons, Limnology and Oceanography, vol.21, issue.1, pp.153-156, 1976.
DOI : 10.4319/lo.1976.21.1.0153

C. J. Crossland, B. G. Hatcher, S. V. Smith, C. Angelo, and J. And-wiedenmann, Role of coral reefs in global ocean production Impacts of nutrient enrichment on coral reefs: new perspectives and implications for coastal management and reef survival, Coral Reefs Curr. Opin. Environ. Sustain, vol.10, issue.7, pp.55-64, 1991.

D. , C. F. Domotor, S. L. , W. , and K. L. , Nutrient uptake kinetics of freshly isolated zooxanthellae, Mar. Biol, vol.75, pp.157-167, 1983.

M. Davey, G. Holmes, and R. Johnstone, High rates of nitrogen fixation (acetylene reduction) on coral skeletons following bleaching mortality, Coral Reefs, vol.226, issue.1, pp.227-236, 2008.
DOI : 10.1007/978-3-662-06414-6_13

J. M. De-goeij, D. Van-oevelen, M. J. Vermeij, R. Osinga, J. J. Middelburg et al., Surviving in a Marine Desert: The Sponge Loop Retains Resources Within Coral Reefs, Science, vol.82, issue.6154, pp.108-110, 2013.
DOI : 10.3354/meps202289

C. Deutsch, N. Gruber, R. M. Key, J. L. Sarmiento, A. Ganachaud et al., fixation in the Pacific Ocean, Global Biogeochemical Cycles, vol.1, issue.1, pp.483-506, 1038.
DOI : 10.1029/96JC01849

D. L. Distel, Teredinibacter turnerae gen. nov., sp. nov., a dinitrogen-fixing, cellulolytic, endosymbiotic gamma-proteobacterium isolated from the gills of wood-boring molluscs (Bivalvia: Teredinidae), Int. J. Syst. Evol. Microbiol, vol.52, pp.2261-2269, 2002.

D. L. Distel, D. J. Beaudoin, and W. Morrill, Coexistence of Multiple Proteobacterial Endosymbionts in the Gills of the Wood-Boring Bivalve Lyrodus pedicellatus (Bivalvia: Teredinidae), Applied and Environmental Microbiology, vol.68, issue.12, pp.6292-6299, 2002.
DOI : 10.1128/AEM.68.12.6292-6299.2002

H. W. Ducklow, M. , and R. , Bacterial populations and adaptations in the mucus layers on living corals1, Limnology and Oceanography, vol.24, issue.4, pp.715-725, 1979.
DOI : 10.4319/lo.1979.24.4.0715

L. Ezzat, J. F. Maguer, R. Grover, and C. Ferrier-pagès, Limited phosphorus availability is the Achilles heel of tropical reef corals in a warming ocean Evolution of the nitrogen cycle and its influence on the biological sequestration of CO 2 in the ocean, Nature, vol.387, pp.272-275, 1038.

C. Ferrier-pagès, C. Rottier, E. Beraud, and O. Levy, Experimental assessment of the feeding effort of three scleractinian coral species during a thermal stress: Effect on the rates of photosynthesis, Journal of Experimental Marine Biology and Ecology, vol.390, issue.2, pp.118-124, 2010.
DOI : 10.1016/j.jembe.2010.05.007

C. L. Fiore, J. K. Jarett, N. D. Olson, and M. P. Lesser, Nitrogen fixation and nitrogen transformations in marine symbioses, Trends in Microbiology, vol.18, issue.10, pp.455-463, 2010.
DOI : 10.1016/j.tim.2010.07.001

R. A. Foster, E. J. Carpenter, and B. Bergman, UNICELLULAR CYANOBIONTS IN OPEN OCEAN DINOFLAGELLATES, RADIOLARIANS, AND TINTINNIDS: ULTRASTRUCTURAL CHARACTERIZATION AND IMMUNO-LOCALIZATION OF PHYCOERYTHRIN AND NITROGENASE1, Journal of Phycology, vol.11, issue.2, pp.453-463, 2006.
DOI : 10.1007/978-94-015-7977-3_10

R. A. Foster, M. M. Kuypers, T. Vagner, R. W. Paerl, N. Musat et al., Nitrogen fixation and transfer in open ocean diatom???cyanobacterial symbioses, The ISME Journal, vol.64, issue.9, pp.1484-1493, 2011.
DOI : 10.1016/S0966-842X(99)01670-4

R. A. Foster, A. Paytan, and J. P. Zehr, Seasonality of N2 fixation and nifH gene diversity in the Gulf of Aqaba (Red Sea), 2009.

R. A. Foster and J. P. Zehr, Characterization of diatom???cyanobacteria symbioses on the basis of nifH, hetR and 16S rRNA sequences, Environmental Microbiology, vol.54, issue.11, 1913.
DOI : 10.1046/j.1462-2920.2003.00451.x

R. France, J. Holmquist, C. , M. Frias-lopez, J. Zerkle et al., ??15N evidence for nitrogen fixation associated with macroalgae from a seagrass-mangrove-coral reef system, Marine Ecology Progress Series, vol.167, issue.68, pp.297-299, 1998.
DOI : 10.3354/meps167297

M. Garren and F. Azam, Corals shed bacteria as a potential mechanism of resilience to organic matter enrichment, The ISME Journal, vol.6, issue.6, pp.1159-1165, 2011.
DOI : 10.1007/s00338-006-0131-8

M. Garren, F. Azam, C. Godinot, F. Houlbrèque, R. Grover et al., New directions in coral reef microbial ecology, Environmental Microbiology, vol.76, issue.4, pp.833-844, 2011.
DOI : 10.3354/meps076167

J. M. Gove, M. A. Mcmanus, A. B. Neuheimer, J. J. Polovina, J. C. Drazen et al., Near-island biological hotspots in barren ocean basins, Nature Communications, vol.45, pp.1-8, 1038.
DOI : 10.1111/j.1467-9868.2010.00749.x

M. R. Gradoville, A. E. White, D. Böttjer, and M. J. Church, community nitrogen or carbon fixation at Station ALOHA, Limnology and Oceanography, vol.59, issue.3, pp.645-659, 2014.
DOI : 10.4319/lo.2014.59.3.0645

T. Großkopf, W. Mohr, T. Baustian, H. Schunck, D. Gill et al., Doubling of marine dinitrogen-fixation rates based on direct measurements, Nature, vol.105, issue.7411, pp.361-364, 1038.
DOI : 10.1073/pnas.0710279105

A. G. Grottoli, L. J. Rodrigues, and J. E. Palardy, Heterotrophic plasticity and resilience in bleached corals, Nature, vol.282, issue.7088, pp.1186-1189, 2006.
DOI : 10.1038/nature04565

R. Grover and J. F. Maguer, Uptake of ammonium by the scleractinian coral Stylophora pistillata: effect of feeding, light, and ammonium concentrations, Limnol. Oceanogr, vol.47, 2002.

R. Grover, J. F. Maguer, D. Allemand, and C. Ferrier-pagès, Uptake of dissolved free amino acids by the scleractinian coral Stylophora pistillata, Journal of Experimental Biology, vol.211, issue.6, pp.860-865, 2008.
DOI : 10.1242/jeb.012807
URL : https://hal.archives-ouvertes.fr/hal-00633649

R. Grover, J. F. Maguer, A. , and D. , Nitrate uptake in the scleractinian coral Stylophora pistillata, Limnol. Oceanogr, vol.48, 2003.

R. Grover, J. Maguer, D. Allemand, and C. Ferrier-pagès, Urea uptake by the scleractinian coral Stylophora pistillata, Journal of Experimental Marine Biology and Ecology, vol.332, issue.2, pp.216-225, 2006.
DOI : 10.1016/j.jembe.2005.11.020
URL : https://hal.archives-ouvertes.fr/hal-00633679

M. L. Guerinot and D. G. Patriquin, The association of N2-fixing bacteria with sea urchins, Marine Biology, vol.49, issue.2-3, pp.197-207, 1981.
DOI : 10.1007/BF00388183

R. Guppy and J. C. Bythell, Environmental effects on bacterial diversity in the surface mucus layer of the reef coral Montastraea faveolata, Marine Ecology Progress Series, vol.328, pp.133-142, 2006.
DOI : 10.3354/meps328133

D. Haan, J. Visser, P. M. Ganase, A. E. Gooren, E. E. Stal et al., Nitrogen fixation rates in algal turf communities of a degraded versus less degraded coral reef, Coral Reefs, vol.63, issue.7, pp.1003-1015, 2014.
DOI : 10.1111/j.1574-6968.1981.tb06196.x

A. F. Haas, M. S. Naumann, U. Struck, C. Mayr, M. Zibdah et al., Organic matter release by coral reef associated benthic algae in the Northern Red Sea, Journal of Experimental Marine Biology and Ecology, vol.389, issue.1-2, pp.53-60, 2010.
DOI : 10.1016/j.jembe.2010.03.018

P. L. Harrison, W. , and C. C. , Reproduction, dispersal and recruitment of scleractinian corals, Ecosystems of the World, pp.133-207, 1990.

B. G. Hatcher, O. Guldberg, and T. Ridgway, Coral reef primary productivity. A hierarchy of pattern and process, Trends in Ecology & Evolution, vol.5, issue.5, pp.149-155, 1990.
DOI : 10.1016/0169-5347(90)90221-X

G. Holmes and R. W. Johnstone, The role of coral mortality in nitrogen dynamics on coral reefs, Journal of Experimental Marine Biology and Ecology, vol.387, issue.1-2, 2010.
DOI : 10.1016/j.jembe.2010.03.006

F. Houlbrèque, C. T. Ferrier-pagès, A. H. Baird, D. R. Bellwood, and M. Card, Heterotrophy in Tropical Scleractinian Corals Climate change, human impacts, and the resilience of coral reefs, Biol. Rev. Science, vol.84, issue.301, pp.1-17, 2003.

T. P. Hughes, M. J. Rodrigues, D. R. Bellwood, D. Ceccarelli, O. Hoegh-guldberg et al., Phase Shifts, Herbivory, and the Resilience of Coral Reefs to Climate Change, Current Biology, vol.17, issue.4, pp.360-365, 2007.
DOI : 10.1016/j.cub.2006.12.049

R. Jyothibabu, N. V. Madhu, P. A. Maheswaran, D. , and C. , Environmentally-related seasonal variation in symbiotic associations of heterotrophic dinoflagellates with cyanobacteria in the western Bay of Bengal, Symbiosis, vol.42, pp.51-58, 2006.

D. M. Karl, A. F. Michaels, B. Bergman, D. Capone, E. J. Carpenter et al., Dinitrogen fixation in the world???s oceans, Biogeochemistry, vol.5758, pp.47-98, 2002.
DOI : 10.1007/978-94-017-3405-9_2

H. Kayanne, M. Hirota, M. Yamamuro, and I. Koike, Nitrogen fixation of filamentous cyanobacteria in a coral reef measured using three different methods, Coral Reefs, vol.17, issue.2, pp.197-200, 2005.
DOI : 10.1016/B978-0-08-092407-6.50009-2

N. E. Kimes, W. R. Johnson, M. Torralba, K. E. Nelson, E. Weil et al., microbiome: ecological and temporal influences on a Caribbean reef-building coral in decline, Environmental Microbiology, vol.45, issue.7, pp.2082-2094, 2013.
DOI : 10.18475/cjos.v45i2.a10

N. E. Kimes, J. D. Van-nostrand, E. Weil, J. Zhou, M. et al., , an important Caribbean reef-building coral, differs between healthy and yellow-band diseased colonies, Environmental Microbiology, vol.5, issue.2, pp.541-556, 2010.
DOI : 10.1007/978-3-662-06414-6

J. S. Klaus, J. Frias-lopez, G. T. Bonheyo, J. M. Heikoop, and B. W. Fouke, Bacterial communities inhabiting the healthy tissues of two Caribbean reef corals: interspecific and spatial variation, Coral Reefs, vol.296, issue.suppl, pp.129-137, 2005.
DOI : 10.1007/s00338-004-0447-1

J. S. Klaus, I. Janse, J. M. Heikoop, R. A. Sanford, B. W. Fouke et al., Coral microbial communities, zooxanthellae and mucus along gradients of seawater depth and coastal pollution, Environmental Microbiology, vol.41, issue.5, pp.1291-1305, 2007.
DOI : 10.1126/science.1071698

D. I. Kline, N. M. Kuntz, M. Breitbart, and N. Knowlton, Role of elevated organic carbon levels and microbial activity in coral mortality, Marine Ecology Progress Series, vol.314, pp.119-125, 2006.
DOI : 10.3354/meps314119

A. N. Knapp, The sensitivity of marine N2 fixation to dissolved inorganic nitrogen, Frontiers in Microbiology, vol.3, 2012.
DOI : 10.3389/fmicb.2012.00374

A. N. Knapp, K. L. Casciotti, W. M. Berelson, M. G. Prokopenko, C. et al., Low rates of nitrogen fixation in eastern tropical South Pacific surface waters, Proceedings of the National Academy of Sciences, vol.24, issue.4, pp.4398-4403, 2016.
DOI : 10.1021/ac802300u

N. Knowlton, The future of coral reefs, Proc. Nat. Acad. Sci. U.S.A. 98, pp.5419-5425, 2001.
DOI : 10.1073/pnas.091092698

N. Kooperman, E. Ben-dov, E. Kramarsky-winter, Z. Barak, and A. Kushmaro, Coral mucus-associated bacterial communities from natural and aquarium environments, FEMS Microbiology Letters, vol.276, issue.1, pp.106-113, 2007.
DOI : 10.1111/j.1574-6968.2007.00921.x

C. Kopp, M. Pernice, I. Domart-coulon, C. Djediat, J. E. Spangenberg et al., Highly Dynamic Cellular-Level Response of Symbiotic Coral to a Sudden Increase in Environmental Nitrogen, mBio, vol.4, issue.3, pp.52-1300052, 2013.
DOI : 10.1128/mBio.00052-13
URL : https://hal.archives-ouvertes.fr/hal-01584033

C. J. Krediet, K. B. Ritchie, V. J. Paul, and M. Teplitski, Coral-associated micro-organisms and their roles in promoting coral health and thwarting diseases, Proceedings of the Royal Society B: Biological Sciences, vol.23, issue.7, pp.20122328-20122328, 2013.
DOI : 10.1016/j.tree.2008.03.004

E. B. Kujawinski, The Impact of Microbial Metabolism on Marine Dissolved Organic Matter, Annual Review of Marine Science, vol.3, issue.1, pp.567-599, 2011.
DOI : 10.1146/annurev-marine-120308-081003

M. Kühl and A. W. Larkum, The microenvironment and photosynthetic performance of prochloron sp. in symbiosis with didemnid ascidians, " in Cellular Origin, Life in Extreme Habitats and Astrobiology Cellular Origin, Life in Extreme Habitats and Astrobiology, pp.273-290, 2004.

A. Larkum, I. R. Kennedy, and W. J. Muller, Nitrogen fixation on a coral reef, Marine Biology, vol.80, issue.1, pp.143-155, 1988.
DOI : 10.1007/BF00392669

L. Moal, M. Collin, H. Biegala, and I. C. , Intriguing diversity among diazotrophic picoplankton along a Mediterranean transect: a dominance of rhizobia, Biogeosciences, vol.8, issue.3, pp.827-840, 2011.
DOI : 10.5194/bg-8-827-2011
URL : https://hal.archives-ouvertes.fr/hal-00701430

C. P. Lechene, Y. Luyten, G. Mcmahon, and D. L. Distel, Quantitative Imaging of Nitrogen Fixation by Individual Bacteria Within Animal Cells, Science, vol.52, issue.1, pp.1563-1566, 2007.
DOI : 10.1016/0022-0981(81)90171-4

K. A. Lema, P. L. Clode, M. R. Kilburn, R. Thornton, B. L. Willis et al., Imaging the uptake of nitrogen-fixing bacteria intolarvae of the coral Acropora millepora, ISME J, 2015.

K. A. Lema, B. L. Willis, and D. G. Bourne, Corals Form Characteristic Associations with Symbiotic Nitrogen-Fixing Bacteria, Applied and Environmental Microbiology, vol.78, issue.9, pp.3136-3144, 2012.
DOI : 10.1128/AEM.07800-11

K. A. Lema, B. L. Willis, and D. G. Bourne, microbiome, Environmental Microbiology, vol.64, issue.10, pp.3345-3359, 2014.
DOI : 10.1371/journal.pone.0055148

M. P. Lesser, L. I. Falcón, A. Rodríguez-román, S. Enríquez, O. Hoegh-guldberg et al., Nitrogen fixation by symbiotic cyanobacteria provides a source of nitrogen for the scleractinian coral Montastraea cavernosa, Marine Ecology Progress Series, vol.346, issue.305, pp.143-152, 2004.
DOI : 10.3354/meps07008

R. A. Littman, B. L. Willis, and D. G. Bourne, Bacterial communities of juvenile corals infected with different Symbiodinium (dinoflagellate) clades, Marine Ecology Progress Series, vol.389, pp.45-59, 2009.
DOI : 10.3354/meps08180

R. A. Littman, B. L. Willis, C. Pfeffer, and D. G. Bourne, Diversities of coral-associated bacteria differ with location, but not species, for three acroporid corals on the Great Barrier Reef, FEMS Microbiology Ecology, vol.68, issue.2, pp.152-163, 2009.
DOI : 10.1111/j.1574-6941.2009.00666.x

R. Littman, B. L. Willis, D. G. Bourne, Y. W. Luo, S. C. Doney et al., Metagenomic analysis of the coral holobiont during a natural bleaching event on the Great Barrier Reef Database of diazotrophs in global ocean: abundance, biomass and nitrogen fixation rates, Environ. Microbiol. Earth Syst. Sci. Data, vol.6, issue.4, pp.651-660, 2011.

Y. A. Luyten, J. R. Thompson, W. Morrill, M. F. Polz, and D. L. Distel, Extensive Variation in Intracellular Symbiont Community Composition among Members of a Single Population of the Wood-Boring Bivalve Lyrodus pedicellatus (Bivalvia: Teredinidae), Applied and Environmental Microbiology, vol.72, issue.1, pp.412-417412, 2006.
DOI : 10.1128/AEM.72.1.412-417.2006

D. J. Miller, Y. , and D. , Inorganic Nitrogen Uptake by Symbiotic Marine Cnidarians: A Critical Review, Proceedings of the Royal Society B: Biological Sciences, vol.237, issue.1286, pp.109-1250040, 1989.
DOI : 10.1098/rspb.1989.0040

N. M. Mohamed, A. S. Colman, Y. Tal, R. T. Hill, T. Großkopf et al., Diversity and expression of nitrogen fixation genes in bacterial symbionts of marine sponges, Environmental Microbiology, vol.35, issue.11, pp.2910-2921, 2008.
DOI : 10.1016/B978-0-08-025904-8.50016-X

J. P. Montoya, M. Voss, P. Kahler, C. , and D. G. , A simple, highprecision , high-sensitivity tracer assay for N 2 fixation, Appl. Environ. Microbiol, vol.62, pp.986-993, 1996.

C. M. Moore, M. M. Mills, K. R. Arrigo, I. Berman-frank, L. Bopp et al., Processes and patterns of oceanic nutrient limitation, Nature Geoscience, vol.8, issue.9, pp.701-710, 1038.
DOI : 10.1111/j.1461-0248.2005.00768.x

M. E. Mouchka, I. Hewson, and C. D. Harvell, Coral-Associated bacterial assemblages: current knowledge and the potential for climate-driven impacts Dinitrogen fixation and release of ammonium and dissolved organic nitrogen by Trichodesmium IMS101, Integr. Comp. Biol. Aquat. Microb. Ecol, vol.503354, issue.37, pp.662-674, 2004.

C. B. Munn, The Role of Vibrios in Diseases of Corals, Microbiology Spectrum, vol.3, issue.4, 2015.
DOI : 10.1128/microbiolspec.VE-0006-2014

M. S. Naumann, W. Niggl, C. Laforsch, C. Glaser, and C. Wild, Coral surface area quantification???evaluation of established techniques by comparison with computer tomography, Coral Reefs, vol.287, issue.1, pp.109-117, 2009.
DOI : 10.1007/s00338-008-0459-3

D. A. Nielsen, M. Pernice, M. Schliep, G. Sablok, T. C. Jeffries et al., inhabiting the surface of crustose didemnid ascidians, Environmental Microbiology, vol.31, issue.10, pp.4121-4132, 2015.
DOI : 10.1111/j.1365-3040.2008.01802.x

J. Nissimov, E. Rosenberg, and C. B. Munn, Antimicrobial properties of resident coral mucus bacteria of Oculina patagonica, FEMS Microbiol. Lett, vol.292, 2009.

H. T. Odum and E. P. Odum, Trophic Structure and Productivity of a Windward Coral Reef Community on Eniwetok Atoll, Ecological Monographs, vol.25, issue.3, pp.291-320, 1955.
DOI : 10.2307/1943285

N. D. Olson, T. D. Ainsworth, R. D. Gates, and M. Takabayashi, Diazotrophic bacteria associated with Hawaiian Montipora corals: Diversity and abundance in correlation with symbiotic dinoflagellates, Journal of Experimental Marine Biology and Ecology, vol.371, issue.2, pp.140-146, 2009.
DOI : 10.1016/j.jembe.2009.01.012

N. D. Olson and M. P. Lesser, Diazotrophic diversity in the Caribbean coral, Montastraea cavernosa, Archives of Microbiology, vol.5, issue.12, pp.853-859, 2013.
DOI : 10.1046/j.1462-2920.2003.00451.x

J. C. Orr, V. J. Fabry, O. Aumont, L. Bopp, and S. C. Doney, Anthropogenic ocean acidification over the twenty-first century and its impact on calcifying organisms, Nature, vol.437, issue.7059, pp.681-686, 1038.
DOI : 10.1038/nature04095
URL : https://hal.archives-ouvertes.fr/hal-00124807

F. Oswald, F. Schmitt, A. Leutenegger, S. Ivanchenko, C. Angelo et al., Contributions of host and symbiont pigments to the coloration of reef corals, Nitrogen in the Marine Environment, pp.1102-1122, 2007.
DOI : 10.1385/1-59259-359-3:103

H. W. Paerl, R. A. Lewin, and L. Cheng, Variations in Chlorophyll and Carotenoid Pigmentation Among Prochloron (Prochlorophyta) Symbionts in Diverse Marine Ascidians, Botanica Marina, vol.31, issue.6, 1984.
DOI : 10.1016/0005-2728(74)90199-6

D. L. Parry, Prochloron on the sponge Aplysilla sp, BMS, vol.38, pp.388-390, 1986.

U. Passow and C. A. Carlson, The biological pump in a high CO<sub>2 world, Marine Ecology Progress Series, vol.470, pp.249-271, 2012.
DOI : 10.3354/meps09985

A. Paytan, G. G. Shellenbarger, and J. H. Street, Submarine groundwater discharge: An important source of new inorganic nitrogen to coral reef ecosystems, Limnology and Oceanography, vol.51, issue.1, pp.343-348, 2006.
DOI : 10.4319/lo.2006.51.1.0343

M. Pernice and O. Levy, Novel tools integrating metabolic and gene function to study the impact of the environment on coral symbiosis, Frontiers in Microbiology, vol.31, issue.L04604, 2014.
DOI : 10.1111/j.1365-3040.2008.01802.x

M. Pernice, S. R. Dunn, L. Tonk, S. Dove, I. Domart-coulon et al., A nanoscale secondary ion mass spectrometry study of dinoflagellate functional diversity in reef-building corals, Environmental Microbiology, vol.31, issue.10, pp.3570-3580, 2014.
DOI : 10.1111/j.1365-3040.2008.01802.x

M. Pernice, H. Meier, A. Van-den-heuvel, C. Kopp, I. Domart-coulon et al., A single-cell view of ammonium assimilation in coral???dinoflagellate symbiosis, The ISME Journal, vol.48, issue.7, pp.1314-1324, 2012.
DOI : 10.1111/j.1365-3040.2008.01802.x

J. R. Postgate, The Fundamentals of Nitrogen Fixation, 1982.

J. Prechtl, Intracellular Spheroid Bodies of Rhopalodia gibba Have Nitrogen-Fixing Apparatus of Cyanobacterial Origin, Molecular Biology and Evolution, vol.21, issue.8, pp.1477-1481, 2004.
DOI : 10.1093/molbev/msh086

A. N. Rai, E. Söderbäck, and B. Bergman, Tansley Review No. 116, New Phytologist, vol.147, issue.3, pp.449-481, 2000.
DOI : 10.1046/j.1469-8137.2000.00720.x

E. Ransome, C. B. Munn, N. Halliday, M. Cámara, T. et al., -acyl-homoserine lactone molecules found in cnidarians, FEMS Microbiology Ecology, vol.87, issue.2, pp.315-329, 2013.
DOI : 10.1111/1574-6941.12226

N. Rädecker, F. W. Meyer, V. N. Bednarz, U. Cardini, and C. Wild, Ocean acidification rapidly reduces dinitrogen fixation associated with the hermatypic coral Seriatopora hystrix, Marine Ecology Progress Series, vol.511, pp.297-302, 2014.
DOI : 10.3354/meps10912

N. Rädecker, C. Pogoreutz, C. R. Voolstra, J. Wiedenmann, and C. Wild, Nitrogen cycling in corals: the key to understanding holobiont functioning? Trends Microbiol, pp.490-497, 2015.

L. Reshef, O. Koren, Y. Loya, I. Zilber-rosenberg, and E. Rosenberg, The Coral Probiotic Hypothesis, Environmental Microbiology, vol.273, issue.12, 2006.
DOI : 10.2307/1313569

L. Riemann, H. Farnelid, and G. F. Steward, Nitrogenase genes in noncyanobacterial plankton: prevalence, diversity and regulation in marine waters, Aquat. Microb. Ecol, vol.613354, pp.235-247, 1431.

K. B. Ritchie, Regulation of microbial populations by coral surface mucus and mucus-associated bacteria, Marine Ecology Progress Series, vol.322, pp.1-14, 2006.
DOI : 10.3354/meps322001

K. B. Ritchie and G. W. Smith, Carbon-source utilization patterns of coral-associated marine heterotrophs, J. Mar. Biotechnol, vol.3, pp.105-107, 1995.

K. B. Ritchie and G. W. Smith, Microbial Communities of Coral Surface Mucopolysaccharide Layers, pp.259-264, 2004.
DOI : 10.1007/978-3-662-06414-6_13

L. Rix, V. N. Bednarz, U. Cardini, N. Van-hoytema, F. A. Al-horani et al., Seasonality in dinitrogen fixation and primary productivity by coral reef framework substrates from the northern Red Sea, Marine Ecology Progress Series, vol.533, issue.135, pp.79-92, 1007.
DOI : 10.3354/meps11383

J. M. Roberts, L. M. Fixter, and P. S. Davies, Ammonium metabolism in the symbiotic sea anemone Anemonia viridis, Hydrobiologia, vol.461, issue.1/3, pp.25-35, 2001.
DOI : 10.1023/A:1012752828587

F. Rohwer, M. Breitbart, J. Jara, F. Azam, and N. Knowlton, Diversity of bacteria associated with the Caribbean coral Montastraea franksi, Coral Reefs, vol.20, pp.85-91, 2001.

F. Rohwer, V. Seguritan, F. Azam, N. Knowlton, E. Rosenberg et al., Diversity and distribution of coral-associated bacteria Microbial diseases of corals and global warming, Mar. Ecol. Prog. Ser. Environ. Microbiol, vol.243, issue.4, pp.318-326, 2002.

R. Rowan, N. Knowlton, A. Baker, and J. Jara, Landscape ecology of algal symbionts creates variation in episodes of coral bleaching, Nature, vol.365, issue.6639, pp.265-269, 1997.
DOI : 10.1038/365836a0

C. L. Sabine, The oceanic sink for anthropogenic CO 2, Science, vol.305, 2004.

H. F. Santos, F. A. Carmo, G. Duarte, F. Dini-andreote, C. B. Castro et al., Climate change affects key nitrogen-fixing bacterial populations on coral reefs, The ISME Journal, vol.57, issue.11, pp.2272-2279, 2014.
DOI : 10.3354/meps287087

N. Shashar, Y. Cohen, Y. Loya, N. J. Sar, M. Shaw et al., Nitrogen fixation (acetylene reduction) in stony corals: evidence for coral-bacteria interactions, Marine Ecology Progress Series, vol.111, issue.9, pp.259-264, 1994.
DOI : 10.3354/meps111259

J. A. Sohm, E. A. Webb, C. , D. G. Woodley, C. M. Medina et al., Emerging patterns of marine nitrogen fixation, Nature Reviews Microbiology, vol.49, issue.7, pp.499-508, 2010.
DOI : 10.4319/lo.2004.49.4.1063

A. M. Szmant, L. M. Ferrer, F. , L. M. Tanaka, Y. Miyajima et al., Nitrogen excretion and O: N ratios in reef corals: evidence for conservation of nitrogen Translocation and conservation of organic nitrogen within the coralzooxanthella symbiotic system of Acropora pulchra, as demonstrated by dual isotope-labeling techniques, Mar. Biol. J. Exp. Mar. Biol. Ecol, vol.104, issue.336, pp.119-127, 1990.

M. W. Taylor, R. Radax, D. Steger, and M. Wagner, Sponge-Associated Microorganisms: Evolution, Ecology, and Biotechnological Potential, Microbiology and Molecular Biology Reviews, vol.71, issue.2, pp.295-347, 2007.
DOI : 10.1128/MMBR.00040-06

A. W. Thompson, R. A. Foster, A. Krupke, B. J. Carter, N. Musat et al., Unicellular Cyanobacterium Symbiotic with a Single-Celled Eukaryotic Alga, Science, vol.49, issue.4, pp.1546-1550, 2012.
DOI : 10.4319/lo.2004.49.4.0978
URL : https://hal.archives-ouvertes.fr/hal-01254002

R. V. Thurber, D. Willner-hall, B. Rodriguez-mueller, C. Desnues, R. A. Edwards et al., Metagenomic analysis of stressed coral holobionts, Environmental Microbiology, vol.69, issue.8, pp.2148-2163, 2009.
DOI : 10.4319/lom.2006.4.184

K. A. Turk-kubo, I. E. Frank, M. E. Hogan, A. Desnues, S. Bonnet et al., Diazotroph community succession during the VAHINE mesocosm experiment (New Caledonia lagoon), Biogeosciences, vol.12, issue.24, pp.7435-7452, 2015.
DOI : 10.5194/bg-12-7435-2015-supplement

R. L. Vega-thurber, K. L. Barott, D. Hall, and H. Liu, Metagenomic analysis indicates that stressors induce production of herpes-like viruses in the coral Porites compressa, Proceedings of the National Academy of Sciences, vol.11, issue.1, pp.18413-184180808985105, 2008.
DOI : 10.1101/gr.149801

M. J. Vermeij, I. Van-moorselaar, S. Engelhard, C. Hörnlein, S. M. Vonk et al., The Effects of Nutrient Enrichment and Herbivore Abundance on the Ability of Turf Algae to Overgrow Coral in the Caribbean, PLoS ONE, vol.440, issue.12, 2010.
DOI : 10.1371/journal.pone.0014312.t004

J. T. Wang and A. E. Douglas, Essential amino acid synthesis and nitrogen recycling in an alga-invertebrate symbiosis, Marine Biology, vol.135, issue.2, pp.219-222, 1999.
DOI : 10.1007/s002270050619

J. Wang and A. E. Douglas, Nitrogen recycling or nitrogen conservation in an alga-invertebrate symbiosis?, J. Exp. Biol, vol.201, pp.2445-2453, 1998.

D. Wangpraseurt, M. Weber, H. Røy, L. Polerecky, D. De-beer et al., In Situ Oxygen Dynamics in Coral-Algal Interactions, PLoS ONE, vol.51, issue.2, 2012.
DOI : 10.1371/journal.pone.0031192.s001
URL : https://hal.archives-ouvertes.fr/hal-00722760

K. L. Webb, W. D. Dupaul, W. Wiebe, and W. Sottile, Enewetak (Eniwetok) Atoll: Aspects of the nitrogen cycle on a coral reef1, Limnology and Oceanography, vol.20, issue.2, pp.198-210, 1975.
DOI : 10.4319/lo.1975.20.2.0198

L. Wegley, R. Edwards, B. Rodriguez-brito, H. Liu, and F. Rohwer, Metagenomic analysis of the microbial community associated with the coral Porites astreoides, Environmental Microbiology, vol.21, issue.11, pp.2707-2719, 2007.
DOI : 10.1111/j.1462-2920.2006.01005.x

W. J. Wiebe, R. E. Johannes, W. , and K. L. , Nitrogen Fixation in a Coral Reef Community, Science, vol.188, issue.4185, 1975.
DOI : 10.1126/science.188.4185.257

C. Wild, M. Huettel, A. Klueter, S. G. Kremb, M. Y. Rasheed et al., Coral mucus functions as an energy carrier and particle trap in the reef ecosystem Influence of coral mucus on nutrient fluxes in carbonate sands, Nature Mar. Ecol. Prog. Ser, vol.4283354, issue.287, pp.87-98, 2004.

C. R. Wilkinson, F. , P. Wilkinson, C. R. Williams, D. Sammarco et al., Nitrogen fixation in coral reef sponges with symbiotic cyanobacteria, Nature, vol.4, issue.5713, pp.527-529, 1007.
DOI : 10.1016/0038-0717(73)90093-X

S. L. Williams, R. C. Carpenter, W. M. Williams, A. B. Viner, and W. J. Broughton, Grazing effects on nitrogen fixation in coral reef algal turfs, Marine Biology, vol.130, issue.2, pp.223-231, 1007.
DOI : 10.1007/s002270050242

S. T. Wilson, D. Böttjer, M. J. Church, K. , and D. M. , Comparative Assessment of Nitrogen Fixation Methodologies, Conducted in the Oligotrophic North Pacific Ocean, Applied and Environmental Microbiology, vol.78, issue.18, pp.6516-6523, 2012.
DOI : 10.1128/AEM.01146-12

Q. Yang, J. Dong, Y. Zhang, J. Ling, W. et al., Diversity analysis of diazotrophs associated with corals from Xisha and Sanya, South China Sea, Aquatic Ecosystem Health & Management, vol.96, issue.1, pp.433-442, 2015.
DOI : 10.1007/s10126-013-9503-6

D. Yellowlees, T. A. Rees, and W. Leggat, Metabolic interactions between algal symbionts and invertebrate hosts, Plant, Cell & Environment, vol.48, issue.5, 2008.
DOI : 10.1016/j.bbamem.2004.02.010