Please visit Dr. Jennifer Smith’s Google Scholar page for the most up-to-date list of peer-reviewed publications.


Hargrave, M.S., S. Islam, V. Agarwal and J.E. Smith (2024) The influence of light stress on bromoform synthesis and concentration in the red seaweed Asparagopsis taxiformis. Journal of Applied Phycology


Dishon, G., Resetarits, H.M., Tsai, B., Jones, A.L., Agarwal, V. and Smith, J.E. (2023). The effect of light intensity, spectrum, and photoperiod on the physiological performance of Asparagopsis taxiformis tetrasporophytes. Algal Research, 76, p.103304.

Khen, A., Wall, C.B. and Smith, J.E. (2023). Standardization of in situ coral bleaching measurements highlights the variability in responses across genera, morphologies, and regions. PeerJ, 11, p.e16100.

Charendoff, J., C.E. Edwards, S.A. Sandin and J.E. Smith (2023) Variability in composition of parrotfish bite scars across space and over time on a central Pacific atoll. Coral Reefs

Cannon, A.L., M.G Hynes, M. Brandt, C. Wold, A. O’Dea, A. Altieri and J.E. Smith (2023) Simulated green turtle grazing reduces seagrass productivity and alters benthic community structure while triggering further disturbance by feeding stingrays. Caribbean Journal of Science

Fox,M.D., R. Guillaume-Caste, C.B. Edwards, J. Glanz, J.M. Gove, J. A. Mattias Green, E. Juhlin, J.E. Smith, and G.J. Williams (2023) Ocean currents magnify upwelling and deliver nutritional subsidies to reef-building corals during El Niño heatwaves. Science Advances

Pezner, A.K., Courtney, T.A., Barkley, H.C., Chou, W.C., Chu, H.C., Clements, S.M., Cyronak, T., DeGrandpre, M.D., Kekuewa, S.A., Kline, D.I., Liang, Y.B., Martz, T.A., Mitarai, S., Page, H., Rintoul, M., Smith, J. E., Soong, K., Takeshita, Y., Tresguerres, M., Wei, Y. Yates, K., Andersson, A.A.  2023. Increasing hypoxia on global coral reefs under ocean warming. Nature Climate Change, pp.1-7.


Dishon, G., Resetarits, H.M., Tsai, B., Black, K., Grossmann, J. and Smith, J.E., 2022. Image-Based Analysis and Quantification of Biofouling in Cultures of the Red Alga Asparagopsis taxiformis. Journal of Applied Phycology

McCarthy, O.S., J.E. Smith, V. Petrovic, S.A. Sandin. 2022. Identifying the drivers of structural complexity on Hawaiian coral reefs. Marine Ecology Progress Series 702:71-86.

Shaffer, J.P., L-F. Nothias, L.R. Thompson, J.G. Sanders, R.A. Salido, S.P. Couvillion, A.D. Brejnrod, F. Lejzerowicz, N. Haiminen, S. Huang, H.L. Lutz, Q. Zhu, C. Martino, J.T. Morton, S. Karthikeyan, M. Nothias-Esposito, K. Dührkop, S. Böcker, H.W. Kim, A.A. Aksenov, W. Bittremieux, J.J. Minich, C. Marotz, M.M. Bryant, K. Sanders, T. Schwartz, G. Humphrey, Y. Vásquez-Baeza, A. Tripathi, L. Parida, A.P. Carrieri, K.L. Beck, P. Das, A. González, D. McDonald, J. Ladau, S.M. Karst, M. Albertsen, G. Ackermann, J. DeReus, T. Thomas, D. Petras, A. Shade, J. Stegen, S.J. Song, T.O. Metz, A.D. Swafford, P.C. Dorrestein, J.K. Jansson, J.A. Gilbert, R. Knight, Earth Microbiome Project 500 (EMP500) Consortium. 2022. Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity. Nature Microbiology 7:2128-2050.

Wilson, J.M., N. Erazo, E. Connors, E.J. Chamberlain, S.M. Clements, M.L. Carter, J.E. Smith, J.S. Bowman (2022) Substantial microbial community shifts in response to an exceptional harmful algal bloom in coastal Southern California. Elementa: Science of the Anthropocene 00088. doi:

Sandin, S.A., E. Alcantar, R. Clark, R. de León, F. Dilrosun, C.B. Edwards, A.J. Estep, Y. Eynaud, B.J. French, M.D. Fox, D. Grenda, S.L. Hamilton, H. Kramp, K.L. Marhaver, S.D. Miller, T.N.F. Roach, G. Seferina, C.B. Silveira, J.E. Smith, B.J. Zgliczynski, M.J.A. Vermeij. (2022). Benthic assemblages are more predictable than fish assemblages at an island scale. Coral Reefs.

Sandin, S.A., C.B. Edwards, B.J. Zgliczynski, N.E. Pedersen, J.E. Smith, D.E. McNamara. 2022. Evidence of biological self-organization in spatial patterns of a common tropical alga. American Naturalist.

Donham, E., S.L. Hamilton, N.N. Price and J.E. Smith (2022) Consequences of warming and acidification for the temperate articulated coralline alga, Calliarthron cheilosporoides (Florideophyceae, Rhodophyta). Journal of Phycology

Johnson, M.D., Price, N.N. & J.E. Smith (2022) Calcification accretion units (CAUs): A standardized approach for quantifying recruitment and calcium carbonate accretion in marine habitats. Methods in Ecology and Evolution. [pdf]

Leliaert, F., Kelly, E.L., Janouškovec, J., Fox, M.D., Johnson, M.D., Redfern, F.M., Eria, T., Haas, A.F., Sala, E., Sandin, S.A. & J.E. Smith (2022) Brilliantia kiribatiensis, a new genus and species of Cladophorales (Chlorophyta) from the remote coral reefs of the Southern Line Islands, Pacific Ocean. Journal of Phycology, 58(2), pp.183-197. [pdf]

Khen, A., Johnson, M.D., Fox, M.D., Clements, S.M., Carter, A.L., & J.E. Smith (2022) Decadal stability of coral reef benthic communities on Palmyra Atoll, central Pacific, through two bleaching events. Coral Reefs, 1-13. [pdf]

Sandin, S.A., Alcantar, E., Clark, R., de León, R., Dilrosun, F., Edwards, C.B., Estep, A.J., Eynaud, Y., French, B.J., Fox, M.D. Grenda, D., Hamilton, S.L., Kramp, H., Marhaver, K.L., Miller, S.D., Roach, T.N.F., Seferina, G., Silveira, C.B., J.E. Smith, Zgliczynski, B.J., & Vermeij, M.J.A. (2022) Benthic assemblages are more predictable than fish assemblages at an island scale. Coral Reefs, pp.1-13. [pdf]


Fox, M.D., Cohen, A.L., Rotjan, R.D., Mangubhai, S., Sandin, S.A., J.E. Smith, Thorrold, S.R., Dissly, L., Mollica, N.R. and Obura, D. (2021) Increasing coral reef resilience through successive marine heatwaves. Geophysical Research Letters, 48(17), p.e2021GL094128. [pdf]

Martin, N., Bernat, T., Dinasquet, J., Stofko, A., Damon, A., Deheyn, D.D., Azam, F., J.E. Smith, Davey, M.P., Smith, A.G. & Vignolini, S. (2021) Synthetic algal-bacteria consortia for space-efficient microalgal growth in a simple hydrogel system. Journal of Applied Phycology, 33(5), pp.2805-2815. [pdf]

Donham, E.M., S.L. Hamilton, N.N. Price, S. Kram, E. Kelly, M.D. Johnson, A.T. Neu, & J.E. Smith (2021) Experimental assessment of the impacts of ocean acidification and urchin grazing on benthic kelp forest assemblages. Journal of Experimental Marine Biology and Ecology 540: 151548. [pdf]


Keller, L., J.L. Siqueira-Neto, J.M. Souza, K. Eribez, G.M. LaMonte, J.E. Smith, W.H. Gerwick (2020) Palstimolide A: a complex polyhydroxy macrolide with antiparasitic activity. Molecules 25 (7), 1604. [pdf]

Kaplanis, N.J., J.L. Harris, J.E. Smith (2020) A cross-genus comparison of grazing pressure by two native marine herbivores on native, non-native naturalized, and non-native invasive Sargassum macroalgae. Helgoland Marine Research 74 (1), 1-8. [pdf]

Kaplanis, N., C.B. Edwards, Y. Eynaud, J.E. Smith (2020) Future sea-level rise drives rocky intertidal habitat loss and benthic community change. PeerJ 8, e9186. [pdf]

Cyronak, T., Y. Takeshita, T.A. Courtney, E.H. DeCarlo, B.D. Eyre, D.I. Kline, T. Martz, H. Page, N.N. Price, J.E. Smith, L. Stoltenberg, M. Tresguerres, A.J. Andersson (2020) Diel temperature and pH variability scale with depth across diverse coral reef habitats. Limnology and Oceanography Letters 5 (2), 193-203. [pdf]

Johnson, M.D., M.D. Fox, E.L.A. Kelly, B.J. Zgliczynski, S.A. Sandin, J.E. Smith (2020) Ecophysiology of coral reef primary producers across an upwelling gradient in the tropical central Pacific. PloS one 15(2). [pdf]

Kelly, E.L.A., A.L. Cannon, J.E. Smith (2020) Environmental impacts and implications of tropical carageenophyte seaweed farming. Conservation Biology. [DOI]

Calhoun, S.K., A.F. Haas, Y. Takeshita, M.D. Johnson, M.D. Fox, E.L.A. Kelly, B. Mueller, M.J.A. Vermeij, L.W. Kelly, C.E. Nelson, N.N. Price, T.N.F. Roach, F. Rohwer, J.E. Smith (2020) Evidence for a biological source of widespread, reproducible nighttime oxygen spikes in tropical reef ecosystems has implications for coral health. bioRxiv. [DOI]


Lewis, L.L. & J.E. Smith (2019) Functional diversity among herbivorous sea urchins on a coral reef: grazing rate, dietary preference, and metabolism. Marine Ecology Progress Series. [DOI]

Darling et al. (2019) Social-environmental drivers inform strategic management of coral reefs in the Anthropocene. Nature Ecology & Evolution. [DOI]

Fox, M.D., Carter, A.L., Edwards, C.B., Takeshita, Y., M.D. Johnson, C. Amir, V. Petrovic, E. Sala, S.A. Sandin, J.E. Smith. (2019) Limited coral mortality following acute thermal stress and widespread bleaching at Palmyra Atoll, central Pacific. Coral Reefs. [pdf]

Pedersen, N.E., C.B. Edwards, Y. Eynaud, A.C.R. Gleason, J.E. Smith, S.A. Sandin (2019) The influence of habitat and adults on the spatial distribution of juvenile corals. Ecography. [pdf]

Kelly, L. W., C. E. Nelson, A.F. Haas, D.S. Naliboff, S. Calhoun, C.A. Carlson, R.A. Edwards, M.D. Fox, M. Hatay, M.D. Johnson, E.L.A. Kelly, Y.W. Lim, S. Macherla, Z.A. Quinlan, G.G.Z. Silva, M.J.A. Vermeij, B. Zgliczynski, S.A. Sandin, J.E. Smith, and F. Rohwer (2019). Diel population and functional synchrony of microbial communities on coral reefs. Nature Communications. [pdf]

Fox, M.D., E.A. Elliott Smith, J.E. Smith, S.D. Newsome (2019) Trophic plasticity in a common reef‐building coral: Insights from δ13C analysis of essential amino acids. Functional Ecology.[pdf]

Carter, A. L., C.B. Edwards, M.D. Fox, C.G. Amir, Y. Eynaud, M.D. Johnson, L.L. Lewis, S.A. Sandin, J.E. Smith (2019) Changes in benthic community composition associated with the outbreak of the corallimorph, Rhodactis howesii, at Palmyra Atoll. Coral Reefs.[DOI]

Fox, M.D., G.J. Williams, M.D. Johnson, V.Z. Radice, B.J. Zgliczynski, E.L.A. Kelly, F.L. Rohwer, S.A. Sandin, J.E. Smith (2018) Gradients in primary production predict trophic strategies of mixotrophic corals across spatial scales. Current Biology 28(21): 3355-3364 e4 [pdf]

Galtier d’Auriac, I. R.A. Quinn, H. Maughan, L. Nothias, M.J. Little, C.A. Kapono, A. Cobian, B.T. Reyes, K. Green, S.D. Quistad, M. Leray, J.E. Smith, P.C. Dorrestein, F.L. Rohwer, D.D. Deheyn, A.C. Hartmann (2018) Before platelets: the production of platelet activating factor during growth and stress in a basal marine organism. Proc. R. Soc. B 285 (1884), 20181307 [pdf]

Calhoun SK, Haas AF, Takeshita Y, Johnson MD, Fox MD, Kelly ELA, Mueller B, Vermeij MJA, Kelly LW, Nelson CE, Price NN, Roach TNF, Rohwer FL, Smith JE (2018Exploring the occurrence of and explanations for nighttime spikes in dissolved oxygen across coral reef environments. PeerJ Preprints 5:e2935v2 [pdf]

Williams, G.J., S.A. Sandin, B.J. Zgliczynski, M.D. Fox, J.M. Gove, J.S. Rogers, K.A. Furby, A.C. Hartmann, Z.R. Caldwell, N.N. Price, J.E. Smith (2018) Biophysical drivers of coral trophic depth zonation. Marine Biology 165 (4), 60. [pdf]

Nakajima et al (2018). Release of dissolved and particulate organic matter by soft coral and subsequent microbial degradation JMBE 504: 53-60

Lewis, L.S., J.E. Smith, Y. Eynaud (2018) Comparative metabolic ecology of tropical herbivorous echinoids on a coral reef. PloS one 13 (1), e0190470. [pdf]

Ruttenberg, B., J.E. Caselle, A.J. Estep, A.E. Johnson, K.L. Marhaver, L.J. Richter, S.A. Sandin, M.J.A. Vermeij, J.E. Smith, D. Grenda, A. Cannon (2018). Ecological assessment of the marine ecosystems of Barbuda, West Indies: Using rapid scientific assessment to inform ocean zoning and fisheries management. PloS one 13 (1), e0189355. [pdf]

Edwards, C.B., Y. Eynaud, G.J. Williams, N.E. Pedersen, B.J. Zgliczynski, A.C.R. Gleason, J.E. Smith, S.A. Sandin (2017) Large-area imaging reveals biologically driven non-random spatial patterns of corals at a remote reef. Coral Reefs 36 (4), 1291-1305. [pdf]

Johnson, M.D., S. Comeau, C.A. Lantz, J.E. Smith (2017) Complex and interactive effects of ocean acidification and temperature on epilithic and endolithic coral-reef turf algal assemblages. Coral reefs 36 (4), 1291-1305. [pdf]

Kersten, R.D., S. Lee, D. Fujita, T. Pluskal, S. Kram, J.E. Smith, T. Iwai, J.P. Noel, M. Fujita, J. Weng (2017) A Red Algal Bourbonane Sesquiterpene Synthase Defined by Microgram-scale NMR-coupled Crystalline Sponge XRD Analysis. Journal of the American Chemical Society. [pdf]

Kelly, E.L.A., Y. Eynaud, I.D. Williams, R.T. Sparks, M.L. Dailer, S.A. Sandin, & J.E. Smith (2017) A budget of algal production and consumption by herbivorous fish in an herbivore fisheries management area, Maui, Hawaii. Ecosphere 8(8):e01899.10.1002/ecs2.1899 [pdf]

Calhoun, S.K., A.F. Haas, Y. Takeshita, M.D. Johnson, M.D. Fox, E.L.A. Kelly, B. Mueller, M.J.A. Vermeij, L.W. Kelly, C.E. Nelson, N.N. Price, T.N.F. Roach, F.L. Rohwer, J.E. Smith (2017) Exploring the occurrence of and explanations for nighttime spikes in dissolved oxygen across coral reef environments. Peer J Preprints. [pdf]

Edwards, C.B., Y. Eynaud, G.J. Williams, N.E. Pedersen, B.J. Zgliczynski, A.C.R. Gleason, J.E. Smith, and S.A. Sandin (2017) Large-area imaging reveals biologically driven non-random spatial patterns of corals at a remote reef. Coral Reefs, doi: 10.1007/s00338-017-1624-3 [pdf]

McLaughlin, K., A. Dickson, S.B. Weisberg, K. Coale, V. Elrod, C. Hunter, K.S. Johnson, S. Kram, R. Kudela, T. Martz, K. Negrey, U. Passow, F. Shaughnessy, J.E. Smith, D. Tadesse, L. Washburn, K.R. Weis (2017) An evaluation of ISFET sensors for coastal pH monitoring applications. Regional Studies in Marine Science 12: 11-18. [pdf]

Furby, K.A., S.A. Sandin, and J.E. Smith (2017) Porites superfusa mortality and recovery from a bleaching event at Palmyra Atoll, USA. Peer J, doi: 10.7717/peerj.3204 [pdf]

Nakajima R., H. Yamazaki, L.S. Lewis, A. Khen, J.E. Smith, N. Nakatomi, H. Kurihara (2017) Planktonic trophic structure in a coral reef ecosystem – grazing versus microbial food webs and the production of mesozooplankton. Progress in Oceanography 156: 104-120. [pdf]

Kelly, E.L.A., Y. Eynaud, S.M. Clements, M. Gleason, R.T. Sparks, I.D. Williams, and J.E. Smith (2016) Investigating functional redundancy versus complementarity in Hawaiian herbivorous coral reef fishes. Oecologia 182 (4). [pdf]

Nakajima, R., N. Nakatomi, H. Kurihara, M.D. Fox, J.E. Smith, and K. Okaji (2016) Crown-of-thorns starfish larvae feed on organic matter released from corals. Diversity, 8:4. [pdf]

Takeshita, Y., W. McGillis, E.M. Briggs, A. Carter, E. Donham, T.R. Martz, N.N. Price, and J. E. Smith (2016) Assessment of net community production and calcification of a coral reef using a boundary layer approach. J. Geophys. Res. Oceans. Accepted Author Manuscript. doi:10.1002/2016JC011886 [pdf]

Mullen, A.D., T. Treibitz, P.L.D. Roberts, E.L.A. Kelly,  R. Horwitz, J.E. Smith, and J.S. Jaffe (2016) Underwater microscopy for in situ studies of benthic ecosystems. Nat. Commun. 7:12093 doi:10.1038/ncomms12093 [pdf]

Kaplanis, N., J. Harris, and J.E. Smith (2016) Distribution patterns of the non-native seaweeds Sargassum horneri (Turner) C.Agardh and Undaria pinnatifida (Harvey) Suringar on the San Diego and Pacific coast of North America. Aquatic Invasions 11(2). [pdf]

Quinn, R., M.J.A. Vermeij, A.C. Hartmann, I. Galtier d’Auriac, S. Benler, A. Haas, S.D. Quistad, Y.W. Lim, M. Little, S.A. Sandin, J.E. Smith, P.C. Dorrestein, and F.L. Rohwer (2016) Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence. Proc. R. Soc. B 20160469. [DOI]

Haas, A.F., M.F.M. Fairoz, L.W. Kelly, C.E. Nelson, E.A. Dinsdale, R.A. Edwards, S. Giles, M. Hatay, N. Hisakawa, B. Knowles, Y.W. Lim, H. Maughan, O. Pantos, T.N.F. Roach, S.E .Sanchez, C.B. Silveira, S.A. Sandin, J.E. Smith, and F.L. Rohwer (2016) Global microbialization of coral reefs. Nature Microbiology, 16042, doi:10.1038/nmicrobiol.2016.42 [pdf]

Kram, S.L., N.N Price, E. Donham, M.D. Johnson, E.L.A. Kelly, S.L. Hamilton, and J.E. Smith (2016) Variable responses of temperate calcified and fleshy macroalgae to elevated pCO2 and warming. ICES Journal of Marine Science. Special Issue on Ocean Acidification. [pdf]

Smith, J.E., S.A. Sandin, P.S. Vroom, I. Williams, E. Sala, D. Obura, R. Brainard, A. Carter, S. Grillo, C. Edwards, L. Lewis, and J. Harris. (2016) Re-evaluating the health of coral reef communities: baselines and evidence for human impacts across the central Pacific. Proc. R. Soc. B 283: 20151985. [pdf]

Knowles,B., C.B. Silveira, B.A. Bailey, K. Barott, V.A. Cantu, A.G. Cobián-Güemes, F.H. Coutinho, E.A. Dinsdale, B. Felts, K.A. Furby, E.E. George, K.T. Green, G.B. Gregoracci, A.F. Haas, J.M. Haggerty, E.R. Hester, N. Hisakawa, L.W. Kelly, Y.W. Lim, M. Little, A. Luque, T. McDole-Somera, K. McNair, L.S. de Oliveira, S.D. Quistad, N.L. Robinett, E. Sala, P. Salamon, S.E. Sanchez, S. Sandin, G.G.Z. Silva, J.E. Smith, C. Sullivan, C. Thompson, M.J.A. Vermeij, M. Youle, C. Young, B. Zgliczynski, R. Brainard, R.A. Edwards, J. Nulton, F. Thompson, and F. Rohwer (2016) Lytic to temperate switching of viral communities. Nature 531: 466-470. doi:10.1038/nature17193 [pdf]

Vargas-Ángel, B., C.L. Richards, P.S. Vroom, N.N. Price, T. Schils, C.W. Young, J.E. Smith, M.D. Johnson, and R. Branaird (2015) Baseline Assessment of Net Calcium Carbonate Accretion Rates on U.S. Pacific Reefs. PLoS ONE 10(12): e0142196. doi:10.1371/journal.pone.0142196 [pdf]

Haas, A.F., M. Guibert, A. Foerschner, S. Calhoun, E. George, M. Hatay, E. Dinsdale, S.A. Sandin, J.E. Smith, M.J.A. Vermeij, B. Felts, P. Dustan, P. Salamon, and F. Rohwer. (2015) Can we measure beauty? Computational evaluation of coral reef aesthetics. PeerJ 3:e1390 [pdf]

Takeshita, Y., C.A. Frieder, T.R. Martz, J.R. Ballard, R.A. Feely, S. Kram, S. Nam, M.O. Navarro, N.N. Price, and J.E. Smith (2015) Including high frequency variability in coastal ocean acidification projections. Biogeosciences. [pdf]

Beijbom, O., P.J. Edmunds, C. Roelfsema, J.E. Smith, D.I. Kline, B. Neal, M. Dunlap, V. Moriarty, T. Fan, C. Tan, S. Chan, T. Treibitz, A. Gamst, B.G. Mitchell, D.Kriegman (2015) Towards automated annotation of benthic survey images: variability of human experts and operational modes of automation. PLoS One [pdf]

DeMartini, E.E. and J.E. Smith (2015) Effects of fishing on the fishes and habitat of coral reefs. In Ecology of Fishes on Coral Reefs. Cambridge University Press. Pp 135-144.

Harris, J.L., L.S. Lewis, and J.E. Smith (2015) Quantifying scales of spatial variability in algal turf assemblages on coral reefs. Marine Ecology Progress Series. doi:10.3354/meps11344 [pdf]

Bracken, M. E. S., H. Hillebrand,, E.T. Borer, E.W. Seabloom, J. Cebrian, E.E. Cleland, J.J. Elser, D.S. Gruner, W.S. Harpole, J. Ngai and J. E. Smith (2015) Signatures of nutrient limitation and co-limitation: responses of autotroph internal nutrient concentrations to nitrogen and phosphorus additions. Oikos. doi: 10.1111/oik.01215

Lim, Y.W., D.A. Cuevas, G.G.Z. Silva, K. Aguinaldo, E. Dinsdale, J.E. Smith, et al. (2014) Sequencing at sea: Challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition. PeerJ PrePrints 2:e433v1 [DOI]

Kelly, L.W., G.J. Williams, K.L. Barott, C.A. Carlson, E.A. Dinsdale, R.A. Edwards, A.F. Haas, M. Haynes,Y.W. Lim,T. McDole, JE Smith, et al. (2014) Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences 111(28), 10227-10232. (doi:10.1073/pnas.1403319111). [pdf]

Johnson, M.D., N.N. Price, and J.E. Smith (2014) Contrasting effects of ocean acidification on tropical fleshy and calcareous algae. PeerJ 2:e411.  [DOI]

Edwards, C.B., A. Green, A. Friedlander, M. Newman, E. Sala, S.A. Sandin, H. Sweatman, I. Williams, and J.E. Smith (2014) A global analysis of coral reef herbivorous fishes: Evidence for fishing impacts. PRSB [pdf]

Hamilton, S.L., J.E.Smith, N.N. Price, and S.A. Sandin (2014) Quantifying patterns of fish herbivory on an uninhabited predator-dominated central Pacific coral reef, Palmyra Atoll (USA). Marine Ecology Progress Series [pdf]

Williams, G.J., N.N. Price, G.S. Aeby, E.J. Conklin, S.K. Davy, J.M. Gove, I.S. Knapp, J.E. Smith, and T.M Work (2014) Ocean warming and acidification show interacting, complex effects on the dynamics of a marine fungal disease. PRSB [pdf]

Haas, A.F., A. Gregg, J.E. Smith, and F.L. Rohwer (2013) Visualization of oxygen distribution patterns facilitated by coral and algae. Peer J [DOI]

Haas, A., F.L. Rohwer, C. Carlson, C. Nelson, L. Wegley, J. Leichter, and J.E. Smith (2013) Influence of coral and alga exudates on microbially mediated reef metabolism. PeerJ [DOI]

 Williams, G., J.E. Smith, E. Conklin, J. Gove, S.A. Sandin, E. Sala (2013) Benthic communities at two remote Pacific coral reefs: effects of reef habitat, depth, and horizontal wave energy gradients on spatial patterns. PeerJ 1:e81 [DOI]

Smith, J.E., N.N Price, and A. Haas (2013) Coupled changes in dissolved oxygen and pH associated with metabolism of benthic reef organisms. Marine Biology 160(9): 2437-2447. doi: 10.1007/s00227-013-2239-z [pdf]

Borer, E.T, M.E S. Bracken, E.W. Seabloom, J.E. Smith, J. Cebrian, E.E. Cleland, J.J. Elser, W. Fagan, D.S. Gruner, W.S. Harpole, H. Hillebrand, A.J. Kerkhoff, and J.T. Ngai (2013) Global biogeography of autotroph chemistry: is insolation a driving force? Oikos [pdf]

Nelson, C.E., S.J. Goldberg, L. Wegely-Kelly, A.F. Haas, J.E. Smith, F.L. Rohwer, and C.A. Carlson (2013) Coral and macroalgal exudates vary in neutral sugar composition and differentially enrich reef bacterioplankton lineages. ISME 7: 962-979 [pdf]

Mcleod, E., K.R.N. Anthony, A. Andersson, R. Beeden, Y. Golbuu, J. Kleypas, K. Kroeker, D. Manzello, R. Salm, H. Schuttenberg, and J.E. Smith (2012) Preparing to manage coral reefs for ocean acidification: Lessons from coral bleaching. Frontiers in Ecology and the Environment 11: 20–27. [DOI]

Vermeij, M.A., R.A. van der Heijden, J.G. Olthuis, K.L. Marhaver, P.M. Visser, and J.E. Smith (2012) Survival and dispersal of turf algae and macroalgae consumed by herbivorous coral reef fishes. Oecologia 171(2):417-25. doi: 10.1007/s00442-012-2436-3  [pdf]

Price, N.N., T. Martz, R.E. Brainard, and J.E. Smith (2012) Diel variability in seawater pH relates to calcification and benthic community structure on coral reefs. PLoS ONE 7(8): e43843. doi:10.1371/journal.pone.0043843 [pdf]

Barott, K. G.J. Williams, M.A. Vermeij, J. Harris, J.E. Smith, F.L. Rohwer, and S.A. Sandin (2012) Natural history of competition between corals and algae across a gradient of human activity in the Line Islands of the Central Pacific. MEPS 460: 1-12 [pdf]

Choi H., S.J. Mascuch, F.A. Villa, T. Byrum, M.E. Teasdale, J.E. Smith, L.B. Preskitt,  D.C. Rowley, L. Gerwick, and W.H. Gerwick (2012) Honaucins A-C, potent inhibitors of eukaryotic inflammation and bacterial quorum  sensing: synthetic derivatives and structure-activity relationships. Biology and Chemistry 19(5): 589-598 [<a title=”Honaucins A-C, potent inhibitors of inflammation and bacterial quorum sensing: synthetic derivatives and structure-activity relationships.” [Link]

Dailer, M.L., J.E. Smith, and C.M Smith (2012) Responses of bloom forming and non-bloom forming macroalgae to nutrient enrichment in Hawaii, USA. Harmful Algae [pdf]

Barott, K., B.R. Brito, M. Youle, K. Marhaver, M. Vermeij, J.E. Smith, and F.L. Rohwer (2012) Microbial to reef scale interactions between the reef-building coral Montastraea annularis and benthic algae. Proceedings of the Royal Society, Biology [pdf]

Kelly, L.W., K.L. Barott, E. Dinsdale, A.M. Friedlander, B. Nosrat, D. Obura, E. Sala, S.A. Sandin, J.E. Smith, M.J.A. Vermeij, G.J. Williams, D. Willner, and F. Rohwer. 2012. Black reefs: iron-induced phase shifts on coral reefs. ISME Journal 6:638-649. [pdf]

Freeman, L., A.J. Miller, R.D. Norris and J.E. Smith (2012) Classification of remote Pacific coral reefs by physical oceanographic environment. JGR117: C02007, DOI:10.1029/2011Jc007099 [pdf]

Hofmann, G.E.,  J.E. Smith, K.S. Johnson, U. Send, L.A. Levin, F. Micheli, A. Paytan, N.N. Price, B. Peterson, Y. Takeshita, P.G. Matson, E. Derse Crook, K.J. Kroeker, E.B. Rivest, C.A. Tanner, P.C. Yu, and T.R. Martz (2011) High frequency dynamics of ocean pH: A multi-ecosystem comparison. PlosOne DOI: 10.1371/journal.pone.0028983. [pdf]

Haas, A., F.L. Rohwer, C. Carlson, C. Nelson, L. Wegley, J. Leichter and J.E. Smith (2011) Effects of coral reef benthic primary producers on dissolved organic carbon and microbial activity. PLoSOne DOI: 10.1371/journal.pone.0027973. [pdf]

Price, N.P., S.L. Hamilton, J. Tootle and J.E. Smith (2011) Species specific consequences of ocean acidification for the calcareous tropical green algae Halimeda. MEPS 440: 67–78. [pdf]

Harpole,W.S., J. Ngai, E. Cleland, E. Seabloom, E. Borer, M. Bracken, J. Elser, D. Gruner, H. Hillebrand, J. Shurin, and J.E. Smith (2011) Nutrient co-limitation of plant communities. Ecology Letters 14: 852-862. [pdf]

Barott, K.L., B. Rodriguez-Brito, J. Janouškovec, K. Marhaver, J.E. Smith, P. Keeling, and  F.L. Rohwer (2011) Microbial diversity associated with four functional groups of benthic reef algae and the reef-building coral Montastraea annularis. Environmental Microbiology 1192-1203.

Knapp, I.S., L.S. Godwin, J.E. Smith, and J.J Bell (2011) Records of non-indigenous marine species at Palmyra Atoll in the US Line Islands. Marine Biodiversity Records 4:e30.[pdf]

Smith, J.E. (2011) Invasive Introduced Algae. Encyclopedia of Invasive Species. Edited by Simberloff and Rejamnek. University of California Press.[pdf]

Barott, K.L., J.E. Caselle, E.A. Dinsdale, A.M. Friedlander, J.E. Maragos, D. Obura, F.L. Rohwer, S.A. Sandin, J.E. Smith, and B. Zgliczynski (2010) The lagoon at Caroline/Millennium atoll, Republic of Kiribati: natural history of a nearly pristine ecosystem. PLoS ONE, 5(6), e10950. [pdf]

Carilli, J., J. Godfrey, R. Norris, S.A. Sandin, and J.E. Smith (2010) Periodic endolithic algal blooms in Montastraea faveolata corals may represent periods of low-level stress. Bulletin of Marine Science86 (3): 709-718. [pdf]

McCauley, D.J.,F. Micheli,H. Young,D.P. Tittensor, D.R. Brumbaugh, E. Madin, K.E. Holmes, R. Dunbar, J.E. Smith, H.K. Lotze, and B. Worm (2010) Acute effects of removing large fish from a near-pristine coral reef. Marine Biology 157(12):2739-2750. [pdf]

Smith, J.E., C.L Hunter, and C.M Smith (2010) The effects of top-down and bottom-up factors on benthic coral reef community structure. Oecologia 163(2): 497-507. [pdf]

Dailer, M.L., R.S. Knox, J.E. Smith, M. Napier, and C.M. Smith (2010) Using delta-15N values in algal tissue to map locations and potential sources of anthropogenic nutrient inputs on the island of Maui, Hawai‘i. Marine Pollution Bulletin 60: 655-671. DOI: 10.1016/j.marpolbul.2009.12.021 [pdf]

Salomon, A.K., S.K. Gaichas, N.T. Shears, J.E. Smith, E.M.P. Madin, and S.D. Gaines (2010) Cascading Consequences of Fishing: Navigating Towards Resilient Marine Ecosystems. Conservation Biology 24(2): 382-394. [pdf]

Choi, H., N. Engene, J.E. Smith, L.B. Preskitt, and W.H. Gerwick (2010) Crossbyanols A-D, Toxic Brominated Polyphenyl Ethers from the Hawaiian Bloom-Forming Cyanobacterium Leptolyngbya crossbyana. Journal of Natural Products 73:517-522 [pdf]

Barott, K., J.E. Smith, E. Dinsdale, M. Hatay, S. Sandin, and F.L. Rohwer (2009) Hyperspectral and physiological analyses of coral-algal interactions. PLoS ONE 4(11): e8043. DOI:10.1371/journal.pone.0008043. [pdf]

Braun, C., P.S. Vroom, and J.E. Smith (2009) Examination of algal diversity and benthic community structure at Palmyra Atoll, U.S. Line Islands. Proceedings of the 11th Coral Reef Symposium. [pdf]

Hillebrand, H., D.S. Gruner, M.E. Bracken, E.E. Cleland, J.J. Elser, W.S. Harpole, J.T. Ngai, E.W. Seabloom, J.B. Shurin, and J.E. Smith (2009) Herbivore metabolism and stoichiometry each constrain herbivory at different organizational scales across ecosystems. Ecology Letters 12: 516-527. [pdf]

Smith, J.E., J. Kuwabara, J. Coney, K. Flanagan, J. Beets, D. Brown, F. Stanton, M. Takabayashi, S. duPlessis, B.K. Griesemer, S. Barnes, and J. Turner (2009) An unusual cyanobacterial bloom in Hawaii. Coral Reefs 27: 851. [pdf]

Vermeij, M.J.A., J.E. Smith, S.A. Sandin, and C.M. Smith (2009) Survival and settlement success of coral planulae: synergistic and independent effects of macroalgae and microbes. Oecologia 159(2):325-336. [pdf]

Smith, J.E., H. Spalding, R. Okano, and C.M. Smith (2009) Seaweed communities of Molokai. In An Atlas of Molokai’s Marine Ecosystems. USGS publication. [URL]

Gruner, D.S., J.E. Smith, E.W. Seabloom, S.A. Sandin, J.T. Ngai, H. Hillebrand, W.S. Harpole, J.J. Elser, E.E. Cleland, M.E.S. Bracken, E.T. Borer, and B.M. Bolker (2008) A cross-system synthesis of consumer and nutrient resource control on producer biomass. Ecology Letters 11: 740-755. [pdf]

Sandin, S.A., J.E. Smith, E.E. DeMartini, E.A. Dinsdale, S.D. Donner, A.M. Friedlander, T. Konotchick, M. Malay, J.E. Maragos, D. Obura, O. Pantos, G. Paulay, M. Richie, F.L. Rohwer, R.E. Schroeder, S. Walsh, J.B.C. Jackson, N. Knowlton, and E. Sala (2008) Changes in coral reef communities across a gradient of human disturbance. PLoS-One. [pdf]

Smith, J.E., E.J. Conklin, C.L. Hunter, and C.M. Smith (2008) Response to “Fighting alien algae in Kane’ohe Bay”. Science 319: 157-158. [pdf]

Elser, J.J., M.E. Bracken, E.E Cleland, , D.S Gruner, W.S. Harpole, Hillebrand, H., J.T. Ngai, E.W. Seabloom, J.B. Shurin, and J.E. Smith (2007) A global analysis of nitrogen and phosphorus limitation of primary producers in freshwater, marine, and terrestrial ecosystems. Ecology Letters 10: 1135-1142. [pdf]

Williams, S.L. and J.E. Smith (2007) A global review of the distribution, taxonomy & ecological impacts of introduced seaweeds. Annual Review of Ecology Evolution and Systematics 38: 327-359. [pdf]

Diaz-Pulido G., L.J. McCook, A.W.D. Larkum, H.K. Lotze, J.A. Raven, B. Schaffelke, J.E. Smith, and R.S. Steneck (2007) Vulnerability of macroalgae of the Great Barrier Reef to climate change. Marshall PA, Johnson J (Ed) Climate change and the Great Barrier Reef. Great Barrier Reef Marine Park Authority, Townsville, pp 153-192. [pdf]

Hillebrand, H., D.S. Gruner, M.E. Bracken, E.E. Cleland, J.J. Elser, W.S. Harpole, J.T. Ngai, E.W. Seabloom, J.B. Shurin, and J.E. Smith (2007) Plant community structure and ecosystem productivity regulate the intrinsic control of plant diversity across major ecosystem types. Proceedings of the National Academy of Sciences 104: 10904-10905. [pdf]

Smith, J.E., M. Shaw, R.A. Edwards, D. Obura, D., O. Pantos, E. Sala, S. A. Sandin, S. Smriga, M. Hatay, and F.L. Rohwer (2006) Indirect effects of algae on coral: algae-mediated, microbe-induced coral mortality. Ecology Letters 9: 835-845. [pdf]

Schaffelke, B., J.E. Smith, and C.L. Hewitt (2006) Introduced macroalgae – a growing concern. Proceedings of the International Seaweed Symposium. Journal of Applied Phycology 18: 529-541. [pdf]

Zuccarello, G.C., A.T. Critchley, J.E. Smith, and J.A. West (2006) Systematics and genetic variation in commercial Kappaphycus and Eucheuma (Solieriaceae, Rhodophyta). Proceedings of the International Seaweed Symposium. Journal of Applied Phycology 18: 643-651. [pdf]

Zemke-White, W.L. and J.E. Smith (2006) Environmental impacts of seaweed farming in the tropics. In: Editors A.T. Critchley, M. Ohno and D.B. Largo, World Seaweed Resources: An authoritative reference system. [Link]

Smith, J.E., J.W. Runcie, and C.M. Smith (2005) Bloom dynamics and physiological ecology of the invasive green alga Cladophora sericea on West Maui. Marine Ecology Progress Series 302: 77-91. [pdf]

Conklin, E.J. and J.E. Smith (2005) Increases in abundance and development of management options for the invasive red alga Kappaphycus in Kane’ohe Bay, Hawai’i. Biological Invasions7: 1029-1039. [pdf]

Friedlander, A., G. Aeby, E. Brown, A. Clark, S. Coles, S. Dollar, D. Gulko, C. Hunter, P. Jokiel, J.E. Smith, B. Walsh, I. Williams and W. Wiltse (2005) The Status of the Coral Reef Ecosystems of the Main Hawaiian Islands. In The Status of the Coral Reef Ecosystems of the United States and Pacific Freely Associated States: 2004. [pdf]

Smith, J.E., C. Smith, P. Vroom, K. Beach, S. Miller (2004) Nutrient dynamics of the green alga Halimeda tuna on Conch Reef, Florida Keys: possible influence of internal tides on nutrient status and physiology. Limnology and Oceanography. 49(6): 1923-1936. [pdf]

Smith, J.E., R. Most, T. Sauvage, C. Hunter, C. Squair and E. Conklin (2004) Ecology of the invasive red alga Gracilaria salicornia in Waikiki and possible mitigation strategies. Pacific Science 58(2) 325-343. [pdf]

Vroom, P.S., C.M. Smith, J.A. Coyer, L.J. Walters, C.L. Hunter, K.S. Beach, and J.E. Smith (2003) Field biology of Halimeda tuna (Bryopsidales, Chlorophyta) across a depth gradient: comparative growth, survivorship, recruitment, and reproduction.  Hydrobiologia 501(1): 149-166. [pdf]

Runcie, J.W. and J.E. Smith (2003) Introduction to special issue: Nutrient dynamics in coastal ecosystems-linking physical and biological processes. Journal of Marine Systems 42(3-4): 81-82. [pdf]

Smith, J.E., C.L. Hunter and C.M. Smith (2002) Distribution and reproductive characteristics of nonindigenous and invasive marine algae in the Hawaiian Islands. Pacific Science 56(3): 299-315. [pdf]

Vroom, P. S., J.E. Smith and C.M. Smith (2001) Observations of reproduction in Rhipidosiphon javensis (Halimedineae, Bryopsidales) in Hawai’i. Phycologia 40(1): 97-100. [pdf]

Smith, J.E., C.L. Hunter and C.M. Smith (2001) The effects of herbivory and nutrient enrichment on benthic community structure and development on a Hawaiian Reef. Coral Reefs 19: 332-342. [pdf]