Marlin J. Atkinson

Professor, Hawaii Institute of Marine Biology
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Research Interests

  1. Biogeochemistry of coral reefs: nutrient uptake and its relationship to dissipation of energy by reef benthos; productivity measurements; CNP ratios of plant material; food chain budgets; ocean acidification.
  2. Measurement of fine-structure of oxygen in the ocean: oxygen sensor development and patch structure from biological-physical interactions.
  3. Remote sensing of coral reefs: spectral reflectance of coral reef benthos, radiative transfer theory; airborne and satellite mapping of bottom types and productivity.

Professional Service


Hochberg, E.J.; M.J. Atkinson 2000 Spectral discrimination of coral reef benthic communities.  Coral Reefs.  19(2): 164-171.

Marubini, F; H. Barnett; C. Langdon; M.J. Atkinson 2000  Dependence of calcification on light and carbonate ion concentration for the hermatypic coral Porites compressa. Marine Ecolology Progress Series 220: 153-162.

Atkinson, M.J. 2000 Kanoehe Bay. In: Coral Reefs, mangroves and seagrasses: a sourcebook for managers. Edited by F.Talbot and C. Wilkinson. Science Communications AIMS

Hearn, C.; M.J. Atkinson 2000 Effects of sea-level rise on the hydrodynamics of a coral reef lagoon: Kaneohe Bay, Hawaii. In: Sea-Level Changes and Their Effects. J Noye (ed.). World Scientific Publishing Co Pte Ltd, Singapore, pp. 25-48. 

Tarrant, A.; M.J. Atkinson; S. Atkinson 2001 Uptake of estrone from the water column by a coral community. Marine Biology 139:321-325.

Hearn, C.J.; M.J. Atkinson 2001 Some influences of local sea-level rise on the hydrodynamics of a coral reef lagoon: Kaneohe Bay, Hawaii. Coral Reefs (In Press).

Falter, J.L.; M.J. Atkinson; C.Langdon 2001 Production-Respiration relationships at different time-scales within the Biosphere 2 coral reef biome. Limnology and Oceanography 46(7):1653-1660.

Atkinson, M.J.; J.L. Falter; C.J. Hearn 2001 Nutrient dynamics in the Biosphere 2 coral reef mesocosm: water velocity controls NH4 and PO4 uptake. Coral Reefs 20(4):341-346.

Hearn C.J.; M.J. Atkinson; J.L. Falter 2001 A physical derivation of nutrient-uptake rates in coral reefs: effects of roughness and waves. Coral Reefs 20(4):347-356.

Hearn, C.J.; M.J. Atkinson; J.L. Falter 2002 Response to a comment on “A physical derivation of nutrient-uptake rates in coral reefs: effects of roughness and waves.” Coral Reefs 21:319-321.

Andréfouët S.; C. Payri; E. J. Hochberg; L.Mao Che;  M. J. Atkinson 2003 Airborne hyperspectral detection of microbial mat pigmentation in Rangiroa atoll (French Polynesia). Limnology and. Oceanography 48: 426-430.

Hochberg, E.; M.J. Atkinson; S. Andrefouet 2003  Spectral reflectance of coral reef bottom types worldwide and implications for coral reef remote sensing. Remote Sensing of Environment 85:159-173.

Hochberg, E.; M.J. Atkinson 2003 Capabilities of remote sensors to classify coral, algae and sand as pure and mixed spectra. Remote Sensing of Environment. 85: 174-189.

Tarrant, A.M.; C.H. Blomquist; P. Lima; M.J. Atkinson; S. Atkinson 2003 Metabolism of androgens and estrogens by reef building corals. Comparative Biochemistry and Physiology, Part B. Biochemistry  Vol 136/3 pp 473-485.

Atkinson, M.J.; J. Falter 2003 Biogeochemistry of coral reefs. In. Biogeochemistry of Marine Ecosystems, Eds. K. Black and G. Shimmield; Blackwell Publishing, CRC  Press pp.40-64.

Atkinson, S.; M.J. Atkinson; A.M. Tarrant 2003 Estrogens from sewage in coastal marine environments. Environmental Health Perspectives 111(4):531-535.

Ribes, M.; R.Coma; M.J. Atkinson; R.A. Kinzie III 2003 Particle removal by coral reef communities: picoplankton is a major source of nitrogen. Marine Ecology Progress Series 257:13-23.

Andrefouet, S.; E.J. Hochberg; C. Payri; M.J. Atkinson; F.E. Muller-Karger; H. Ripley 2003 Multi-scale remote sensing of microbial mats in atoll environments. International Journal of  Remote Sensing 24: 2661-2682.

Steven, A.D. L.; M.J. Atkinson 2003 Nutrient-uptake by coral-reef microatolls. Coral Reefs 22:197-204.

Hochberg, E.; M.J. Atkinson; A. Apprill; S. Andréfouët 2004 Spectral reflectance of coral.  Coral Reefs 23: 84-95.

Andréfouët, S.; C. Payri; E.J. Hochberg; C. Hu; M.J. Atkinson; F.E. Muller-Karger 2004 Use of in situ and airborne reflectances for scaling–up spectral discrimination of coral reef macroalgae from species to communities. Marine Ecology Progress Series. 283:161-177.

Tarrant, A.M.; M.J. Atkinson; S. Atkinson 2004 Effects of steroidal estrogens on coral growth and reproduction. Marine Ecology Progress Series 269:121-129.

Falter, J. L.; M.J. Atkinson; M.A. Merrifield. 2004. Mass-transfer limitation of nutrient uptake by a wave-dominated reef flat community. Limnology and  Oceanography  49: 1820-1831.

Lowe R.J.; J.L. Falter; M.D. Bandet; G. Pawlak; M.J. Atkinson; S.G. Monismith; J.R. Koseff  2005 Spectral wave dissipation over a barrier reef. J. Geophyical  Research –oceans 110,CO4001 doi 10.1029/2004JC002711. 

 Ribes, M.; R. Coma; M.J. Atkinson; R.A. Kinzie III   2005 The importance of sponges and ascidians in removal of picoplankton from coral reef water. Limnology Oceanography  50(5): 1480-1489.

Falter, J.L.; M.J. Atkinson; C. F-M. Coimbra 2005 Effects of surface roughness and oscillatory flow on dissolution of plaster forms: Evidence for nutrient mass transfer to coral reef communities. Limnology and Oceanography  50:246-254.

Langdon, C; M.J. Atkinson 2005 Effect of elevated pCO2 on photosynthesis and calcification of corals and interactions with seasonal change in temperature/irradiance and nutrient enrichment. J. Geophysical Research 110: C09S07. doi:10.1029/2004JC002576.

Blomquist, C.H.; P.H. Lima; A.M. Tarrant; M.J. Atkinson; S. Atkinson  2005 17B-Hydroxysteroid dehydrogenase (17beta-HSDD) in scleractinian corals. Comparative Biochemistry and  Physiology B. Biochem Mol Biol 143(4):397-403.

Tribollet, A.; C. Langdon; S. Golubic; M.J. Atkinson 2006 Endolithic microflora are major primary producers in dead carbonate substrates of Hawaiian coral reefs. J. Phycology  42:292-303.

Falter J.L.; M.J. Atkinson; J.H. Fleming; M.M. Bos; R.J. Lowe; J.R. Koseff; S.G. Monismith  2006 A new mesocosm for simulating the effects of wave-driven water motion   on the  biogeochemistry of benthic reef communities. Limnology and Oceanography Methods 4:68-79.

Conger C.; E.J. Hochberg, C.H. Fletcher ; M.J. Atkinson 2006 De-correlating Remote Sensing Color Bands from Bathymetry in Optically Shallow Waters. IEEE Transactions on Geoscience and Remote Sensing. 44(6):1655-1660.

Hochberg E.J.; A. Apprill; M.J. Atkinson; R.R. Bidigare  2006 Bio-optical modeling of   photosynthetic pigments in corals. Coral Reefs 25(1):99-109.

Loehr, L.C.; C.J. Beegle-Krause; K. George; C.D. McGee; A.J. Mearns; M.J. Atkinson 2006 The significance of dilution in evaluating possible impacts of waste water discharges from large cruise ships. Marine Pollution Bulletin 52(6):681-688.

Tribollet, A.; M.J. Atkinson; C. Langdon 2006 Effects of elevated pCO2 on epilithic and   endolithic metabolism of reef carbonates. Global Change Biology 12:2200-2208.

Falter, J.L.; M.J. Atkinson; R.J. Lowe ; S.G. Monismith ; J.R. Koseff 2007 Effects of non-local turbulence on the mass transfer of dissolved species to model coral reefs. Limnology and Oceanography 52: 274-285.

Lowe, R. J.; J. L. Falter; J. R. Koseff; S. G. Monismith; M.J. Atkinson 2007 Spectral wave  flow attenuation within submerged canopies: Implications for wave energy dissipation, J. Geophys. Res. 112, C05018, DOI10.1029/2006JC003605.

Ribes, M.; M.J. Atkinson 2007 Effects of water velocity on picoplankton uptake by coral reef communities. Coral Reefs DOI 10.1007/s00338-007-0211-4.

Hochberg, E.J.; M.J. Atkinson 2008 Coral reef benthic productivity based on opticalabsorptance and light-use efficiency. Coral Reefs: 27:49-59.

Falter, J.L.; R.J. Lowe; M.J. Atkinson; S.G. Monismith; & D.W. Schar  2008 Continuous measurements of net production over a shallow reef community using a modified Eulerian approach. Journal of Geophysical Research – Oceans 113, C07035, DOI: 10.1029/2007JC004663.

Lowe, R.J.; J.L. Falter; M.J. Atkinson; & S.G. Monismith  2008 Wave-driven circulation of a coastal reef-lagoon system. Journal of Physical Oceanography DOI: 10.1175/2008JPO3958.1.

Tarrant, A.M.; J. Cortes; M.J. Atkinson; S. Atkinson; K. Johanning; T. Chiang; J.A. Vargas; J.A McLachlan 2008 Three orphan nuclear receptors in the scleratinian coral Pocillopora  damicornis.  Revista de Biologia Tropical (In Press).

Lowe, R.J.; J.L. Falter; S.G. Monismith; M.J. Atkinson 2008 A numerical study of circulation in a coastal reef-lagoon system.  Journal of Geophysical Research (In Press)

Atkinson, M.J. & P. Cuet  2009 Possible effects of ocean-acidification on coral reefbiogeochemistry:  topics for research.  Marine Ecology Progress Series (In Press)

Cuet, P.; Atkinson, M.J.; Blanchot, J.; Cordier, E.; Falter, J.L.; Frouin, P.; Fujimura, H.; & Y. Suzuki. Carbon, nitrogen, and phosphorus budgets of a coral-dominated fringing reef in Reunion Island: constraints of groundwater nitrogen on coral reef metabolism. (In Prep)

Falter, J.L.; M.J. Atkinson; E.J. Hochberg; R.J. Lowe; & S.G. Monismith 2009  Limits to gross  primary production in coral reef communities. (In Prep)

Falter, J.L. & M.J. Atkinson 2009  Seasonal, spatial and taxonomic differences in the C:N:P of  reef-flat macrophytes. (In Prep)

Cuet, P.; M.J. Atkinson; A. Tribollet; D.W. Schar & J.L. Falter 2009 Effects of nutrients on the functional relationship between coral calcification and aragonite saturation state. (In Prep)

Tribollet, A.; C. Godinot; M.J. Atkinson; C. Langdon 2009 Effects of elevated pCO2 on dissolution of coral carbonates by microbial euendoliths. Global Biogeochemical Cycles   (Submitted)


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