Publications

89 publications

2020

Kaplanis, N. J., Harris, J. L., & Smith, J. E. (2020). A cross-genus comparison of grazing pressure by two native marine herbivores on native, non-native naturalized, and non-native invasiveSargassummacroalgae. Helgoland Marine Research, 74(1). doi: 10.1186/s10152-020-00541-w
Thapa, H. R., Lin, Z. J., Yi, D. Q., Smith, J. E., Schmidt, E. W., & Agarwal, V. (2020). Genetic and biochemical reconstitution of bromoform biosynthesis in asparagopsis lends insights into seaweed reactive oxygen species enzymology. Acs Chemical Biology, 15(6), 1662-1670. doi: 10.1021/acschembio.0c00299
Kaplanis, N. J., Edwards, C. B., Eynaud, Y., & Smith, J. E. (2020). Future sea-level rise drives rocky intertidal habitat loss and benthic community change. Peerj, 8(e9186). doi: 10.7717/peerj.9186
Johnson, M. D., Fox, M. D., Kelly, E. L. A., Zgliczynski, B. J., Sandin, S. A., & Smith, J. E. (2020). Ecophysiology of coral reef primary producers across an upwelling gradient in the tropical central Pacific. PLOS ONE, 15(2), e0228448. doi: 10.1371/journal.pone.0228448
Kelly, E. L. A., Cannon, A. L., & Smith, J. E. (2020). Environmental impacts and implications of tropical carrageenophyte seaweed farming. Conservation Biology. doi: 10.1111/cobi.13462

2019

Carter, A. L., Edwards, C. B., Fox, M. D., Amir, C. G., Eynaud, Y., Johnson, M. D., ... Smith, J. E. (2019). Changes in benthic community composition associated with the outbreak of the corallimorph, Rhodactis howesii, at Palmyra Atoll. Coral Reefs, 38(6), 1267-1279. doi: 10.1007/s00338-019-01841-5
Cyronak, T., Takeshita, Y., Courtney, T. A., DeCarlo, E. H., Eyre, B. D., Kline, D. I., ... Andersson, A. J. (2019). Diel temperature and pH variability scale with depth across diverse coral reef habitats. Limnology and Oceanography Letters. doi: 10.1002/lol2.10129
Pedersen, N. E., Edwards, C. B., Eynaud, Y., Gleason, A. C. R., Smith, J. E., & Sandin, S. A. (2019). The influence of habitat and adults on the spatial distribution of juvenile corals. Ecography. doi: 10.1111/ecog.04520
Darling, E. S., McClanahan, T. R., Maina, J., Gurney, G. G., Graham, N. A. J., Januchowski-Hartley, F., ... Mouillot, D. (2019). Social-environmental drivers inform strategic management of coral reefs in the Anthropocene. Nature Ecology & Evolution, 3(9), 1341-1350. doi: 10.1038/s41559-019-0953-8
Lewis, L. S., & Smith, J. E. (2019). Functional diversity among herbivorous sea urchins on a coral reef: grazing rate, dietary preference, and metabolism. Marine Ecology Progress Series, 625, 71-87. doi: 10.3354/meps13038
Fox, M. D., Carter, A. L., Edwards, C. B., Takeshita, Y., Johnson, M. D., Petrovic, V., ... Smith, J. E. (2019). Limited coral mortality following acute thermal stress and widespread bleaching on Palmyra Atoll, central Pacific. Coral Reefs, 38(4), 701-712. doi: 10.1007/s00338-019-01796-7
Kelly, L. W., Nelson, C. E., Haas, A. F., Naliboff, D. S., Calhoun, S., Carlson, C. A., ... Rohwer, F. (2019). Diel population and functional synchrony of microbial communities on coral reefs. Nature Communications, 10(1691). doi: 10.1038/s41467-019-09419-z

2018

Fox, M. D., Williams, G. J., Johnson, M. D., Radice, V. Z., Zgliczynski, B. J., Kelly, E. L. A., ... Smith, J. E. (2018). Gradients in primary production predict trophic strategies of mixotrophic corals across spatial scales. Current Biology, 28(21), 3355-+. doi: 10.1016/j.cub.2018.08.057
d'Auriac, I. G., Quinn, R. A., Maughan, H., Nothias, L. F., Little, M., Kapono, C. A., ... Hartmann, A. C. (2018). Before platelets: the production of platelet-activating factor during growth and stress in a basal marine organism. Proceedings of the Royal Society B-Biological Sciences, 285(2884). doi: 10.1098/rspb.2018.1307
Nakajima, R., Haas, A. F., Silveira, C. B., Kelly, E. L. A., Smith, J. E., Sandin, S., ... Kurihara, H. (2018). Release of dissolved and particulate organic matter by the soft coral Lobophytum and subsequent microbial degradation. Journal of Experimental Marine Biology and Ecology, 504, 53-60. doi: 10.1016/j.jembe.2018.02.008
Williams, G. J., Sandin, S. A., Zgliczynski, B. J., Fox, M. D., Gove, J. M., Rogers, J. S., ... Smith, J. E. (2018). Biophysical drivers of coral trophic depth zonation. Marine Biology, 165(4). doi: 10.1007/s00227-018-3314-2
Lewis, L. S., Smith, J. E., & Eynaud, Y. (2018). Comparative metabolic ecology of tropical herbivorous echinoids on a coral reef. Plos One, 13(1). doi: 10.1371/journal.pone.0190470
Ruttenberg, B., Caselle, J. E., Estep, A. J., Johnson, A. E., Marhaver, K. L., Richter, L. J., ... Cannon, A. (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). doi: 10.1371/journal.pone.0189355

2017

Edwards, C. B., Eynaud, Y., Williams, G. J., Pedersen, N. E., Zgliczynski, B. J., Gleason, A. C. R., ... Sandin, S. A. (2017). Large-area imaging reveals biologically driven non-random spatial patterns of corals at a remote reef. Coral Reefs, 36(4), 1291-1305. doi: 10.1007/s00338-017-1624-3
Johnson, M. D., Comeau, S., Lantz, C. A., & Smith, J. E. (2017). Complex and interactive effects of ocean acidification and temperature on epilithic and endolithic coral-reef turf algal assemblages. Coral Reefs, 36(4), 1059-1070. doi: 10.1007/s00338-017-1597-2
Kersten, R. D., Lee, S., Fujita, D., Pluskal, T., Kram, S., Smith, J. E., ... Weng, J. K. (2017). A Red Algal Bourbonane Sesquiterpene Synthase Defined by Microgram-Scale NMR-Coupled Crystalline Sponge X-ray Diffraction Analysis. Journal of the American Chemical Society, 139(46), 16838-16844. doi: 10.1021/jacs.7b09452
Kelly, E. L. A., Eynaud, Y., Williams, I. D., Sparks, R. T., Dailer, M. L., Sandin, S. A., & Smith, J. E. (2017). A budget of algal production and consumption by herbivorous fish in an herbivore fisheries management area, Maui, Hawaii. Ecosphere, 8(8). doi: 10.1002/ecs2.1899
Nakajima, R., Yamazaki, H., Lewis, L. S., Khen, A., Smith, J. E., Nakatomi, N., & Kurihara, H. (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. doi: 10.1016/j.pocean.2017.06.007
Furby, K. A., Smith, J. E., & Sandin, S. A. (2017). Porites superfusa mortality and recovery from a bleaching event at Palmyra Atoll USA. Peerj, 5(e3204). doi: 10.7717/peerj.3204
McLaughlin, K., Dickson, A., Weisberg, S. B., Coale, K., Elrod, V., Hunter, C., ... Weis, K. R. (2017). An evaluation of ISFET sensors for coastal pH monitoring applications. Regional Studies in Marine Science, 12, 11-18. doi: 10.1016/j.rsma.2017.02.008

2016

Kelly, E. L. A., Eynaud, Y., Clements, S. M., Gleason, M., Sparks, R. T., Williams, I. D., & Smith, J. E. (2016). Investigating functional redundancy versus complementarity in Hawaiian herbivorous coral reef fishes. Oecologia, 182(4), 1151-1163. doi: 10.1007/s00442-016-3724-0
Takeshita, Y., McGillis, W., Briggs, E. M., Carter, A. L., Donham, E. M., Martz, T. R., ... Smith, J. E. (2016). Assessment of net community production and calcification of a coral reef using a boundary layer approach. Journal of Geophysical Research-Oceans, 121(8), 5655-5671. doi: 10.1002/2016jc011886
Mullen, A. D., Treibitz, T., Roberts, P. L. D., Kelly, E. L. A., Horwitz, R., Smith, J. E., & Jaffe, J. S. (2016). Underwater microscopy for in situ studies of benthic ecosystems. Nature Communications, 7. doi: 10.1038/ncomms12093
Haas, A. F., Fairoz, M. F. M., Kelly, L. W., Nelson, C. E., Dinsdale, E. A., Edwards, R. A., ... Rohwer, F. (2016). Global microbialization of coral reefs. Nature Microbiology, 1(6). doi: 10.1038/nmicrobiol.2016.42
Kaplanis, N. J., Harris, J. L., & Smith, J. E. (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), 111-124. doi: 10.3391/ai.2016.11.2.01
Quinn, R. A., Vermeij, M. J. A., Hartmann, A. C., d'Auriac, I. G., Benler, S., Haas, A., ... Rohwer, F. (2016). Metabolomics of reef benthic interactions reveals a bioactive lipid involved in coral defence. Proceedings of the Royal Society B-Biological Sciences, 283(1829). doi: 10.1098/rspb.2016.0469
Knowles, B., Silveira, C. B., Bailey, B. A., Barott, K., Cantu, V. A., Cobian-Guemes, A. G., ... Rohwer, F. (2016). Lytic to temperate switching of viral communities. Nature, 531(7595), 466-+. doi: 10.1038/nature17193
Smith, J. E., Brainard, R., Carter, A., Grillo, S., Edwards, C., Harris, J., ... Sandin, S. (2016). Re-evaluating the health of coral reef communities: baselines and evidence for human impacts across the central Pacific. Proceedings of the Royal Society B-Biological Sciences, 283(1822). doi: 10.1098/rspb.2015.1985

2015

Vargas-Angel, B., Richards, C. L., Vroom, P. S., Price, N. N., Schils, T., Young, C. W., ... Brainard, R. E. (2015). Baseline assessment of net calcium carbonate accretion rates on US Pacific reefs. Plos One, 10(12). doi: 10.1371/journal.pone.0142196
Haas, A. F., Guibert, M., Foerschner, A., Co, T., Calhoun, S., George, E., ... Rohwer, F. (2015). Can we measure beauty? Computational evaluation of coral reef aesthetics. Peerj, 3(e1390). doi: 10.7717/peerj.1390
Takeshita, Y., Frieder, C. A., Martz, T. R., Ballard, J. R., Feely, R. A., Kram, S., ... Smith, J. E. (2015). Including high-frequency variability in coastal ocean acidification projections. Biogeosciences, 12(19), 5853-5870. doi: 10.5194/bg-12-5853-2015
Harris, J. L., Lewis, L. S., & Smith, J. E. (2015). Quantifying scales of spatial variability in algal turf assemblages on coral reefs. Marine Ecology Progress Series, 532, 41-57. doi: 10.3354/meps11344
Beijbom, O., Edmunds, P. J., Roelfsema, C., Smith, J., Kline, D. I., Neal, B. P., ... Kriegman, D. (2015). Towards automated annotation of benthic survey images: Variability of human experts and operational modes of automation. Plos One, 10(7). doi: 10.1371/journal.pone.0130312
Bracken, M. E. S., Hillebrand, H., Borer, E. T., Seabloom, E. W., Cebrian, J., Cleland, E. E., ... Smith, J. E. (2015). Signatures of nutrient limitation and co-limitation: responses of autotroph internal nutrient concentrations to nitrogen and phosphorus additions. Oikos, 124(2), 113-121. doi: 10.1111/oik.01215

2014

Lim, Y. W., Cuevas, D. A., Silva, G. G. Z., Aguinaldo, K., Dinsdale, E. A., Haas, A. F., ... Edwards, R. A. (2014). Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition. Peerj, 2(e520). doi: 10.7717/peerj.520
Kelly, L. W., Williams, G. J., Barott, K. L., Carlson, C. A., Dinsdale, E. A., Edwards, R. A., ... Rohwer, F. (2014). Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences of the United States of America, 111(28), 10227-10232. doi: 10.1073/pnas.1403319111
Johnson, M. D., Price, N. N., & Smith, J. E. (2014). Contrasting effects of ocean acidification on tropical fleshy and calcareous algae. Peerj, 2(e411). doi: 10.7717/peerj.411
Williams, G. J., Price, N. N., Ushijima, B., Aeby, G. S., Callahan, S., Davy, S. K., ... Work, T. M. (2014). Ocean warming and acidification have complex interactive effects on the dynamics of a marine fungal disease. Proceedings of the Royal Society B-Biological Sciences, 281(1778). doi: 10.1098/rspb.2013.3069
Hamilton, S. L., Smith, J. E., Price, N. N., & Sandin, S. A. (2014). Quantifying patterns of fish herbivory on Palmyra Atoll (USA), an uninhabited predator-dominated central Pacific coral reef. Marine Ecology Progress Series, 501, 141-155. doi: 10.3354/meps10684
Edwards, C. B., Friedlander, A. M., Green, A. G., Hardt, M. J., Sala, E., Sweatman, H. P., ... Smith, J. E. (2014). Global assessment of the status of coral reef herbivorous fishes: evidence for fishing effects. Proceedings of the Royal Society B-Biological Sciences, 281(1774). doi: 10.1098/rspb.2013.1835

2013

Smith, J. E., Price, N. N., Nelson, C. E., & Haas, A. F. (2013). Coupled changes in oxygen concentration and pH caused by metabolism of benthic coral reef organisms. Marine Biology, 160(9), 2437-2447. doi: 10.1007/s00227-013-2239-z
Nelson, C. E., Goldberg, S. J., Kelly, L. W., Haas, A. F., Smith, J. E., Rohwer, F., & Carlson, C. A. (2013). Coral and macroalgal exudates vary in neutral sugar composition and differentially enrich reef bacterioplankton lineages. Isme Journal, 7(5), 962-979. doi: 10.1038/ismej.2012.161
Vermeij, M. J. A., van der Heijden, R. A., Olthuis, J. G., Marhaver, K. L., Smith, J. E., & Visser, P. M. (2013). Survival and dispersal of turf algae and macroalgae consumed by herbivorous coral reef fishes. Oecologia, 171(2), 417-425. doi: 10.1007/s00442-012-2436-3
McLeod, E., Anthony, K. R. N., Andersson, A., Beeden, R., Golbuu, Y., Kleypas, J., ... Smith, J. E. (2013). Preparing to manage coral reefs for ocean acidification: lessons from coral bleaching. Frontiers in Ecology and the Environment, 11(1), 20-27. doi: 10.1890/110240

2012

Price, N. N., Martz, T. R., Brainard, R. E., & Smith, J. E. (2012). Diel Variability in Seawater pH Relates to Calcification and Benthic Community Structure on Coral Reefs. Plos One, 7(8). doi: 10.1371/journal.pone.0043843
Dailer, M. L., Smith, J. E., & Smith, C. M. (2012). Responses of bloom forming and non-bloom forming macroalgae to nutrient enrichment in Hawai'i, USA. Harmful Algae, 17, 111-125. doi: 10.1016/j.hal.2012.03.008
Choi, H., Mascuch, S. J., Villa, F. A., Byrum, T., Teasdale, M. E., Smith, J. E., ... Gerwick, W. H. (2012). Honaucins A-C, potent inhibitors of inflammation and bacterial quorum sensing: synthetic derivatives and structure-activity relationships. Chemistry & Biology, 19(5), 589-598. doi: 10.1016/j.chembiol.2012.03.014
Barott, K. L., Rodriguez-Mueller, B., Youle, M., Marhaver, K. L., Vermeij, M. J. A., Smith, J. E., & Rohwer, F. L. (2012). Microbial to reef scale interactions between the reef-building coral Montastraea annularis and benthic algae. Proceedings of the Royal Society B-Biological Sciences, 279(1733), 1655-1664. doi: 10.1098/rspb.2011.2155
Kelly, L. W., Barott, K. L., Dinsdale, E., Friedlander, A. M., Nosrat, B., Obura, D., ... Rohwer, F. (2012). Black reefs: iron-induced phase shifts on coral reefs. ISME Journal, 6(3), 638-649. doi: 10.1038/ismej.2011.114
Freeman, L. A., Miller, A. J., Norris, R. D., & Smith, J. E. (2012). Classification of remote Pacific coral reefs by physical oceanographic environment. Journal of Geophysical Research-Oceans, 117(C02007). doi: 10.1029/2011jc007099
Barott, K. L., Williams, G. J., Vermeij, M. J. A., Harris, J., Smith, J. E., Rohwer, F. L., & Sandin, S. A. (2012). Natural history of coral-algae competition across a gradient of human activity in the Line Islands. Marine Ecology-Progress Series, 460, 1-12. doi: 10.3354/meps09874

2011

Haas, A. F., Nelson, C. E., Kelly, L. W., Carlson, C. A., Rohwer, F., Leichter, J. J., ... Smith, J. E. (2011). Effects of Coral Reef Benthic Primary Producers on Dissolved Organic Carbon and Microbial Activity. Plos One, 6(11). doi: 10.1371/journal.pone.0027973
Harpole, W. S., Ngai, J. T., Cleland, E. E., Seabloom, E. W., Borer, E. T., Bracken, M. E. S., ... Smith, J. E. (2011). Nutrient co-limitation of primary producer communities. Ecology Letters, 14(9), 852-862. doi: 10.1111/j.1461-0248.2011.01651.x
Barott, K. L., Rodriguez-Brito, B., Janouskovec, J., Marhaver, K. L., Smith, J. E., Keeling, P., & Rohwer, F. L. (2011). Microbial diversity associated with four functional groups of benthic reef algae and the reef-building coral Montastraea annularis. Environmental Microbiology, 13(5), 1192-1204. doi: 10.1111/j.1462-2920.2010.02419.x
Price, N. N., Hamilton, S. L., Tootell, J. S., & Smith, J. E. (2011). Species-specific consequences of ocean acidification for the calcareous tropical green algae Halimeda. Marine Ecology-Progress Series, 440, 67-78. doi: 10.3354/meps09309
Knapp, I. S., Godwin, L. S., Smith, J. E., Williams, C. J., & Bell, J. J. (2011). Records of non-indigenous marine species at Palmyra Atoll in the US Line Islands. Marine Biodiversity Records, 4, 1-7. doi: 10.1017/S1755267211000078

2010

McCauley, D. J., Micheli, F., Young, H. S., Tittensor, D. P., Brumbaugh, D. R., Madin, E. M. P., ... Worm, B. (2010). Acute effects of removing large fish from a near-pristine coral reef. Marine Biology, 157(12), 2739-2750. doi: 10.1007/s00227-010-1533-2
Carilli, J. E., Godfrey, J., Norris, R. D., Sandin, S. A., & Smith, J. E. (2010). Periodic endolithic algal blooms in Montastraea faveolata corals may represent periods of low-level stress. Bulletin of Marine Science, 86(3), 709-718.
Smith, J. E., Hunter, C. L., & Smith, C. M. (2010). The effects of top-down versus bottom-up control on benthic coral reef community structure. Oecologia, 163(2), 497-507. doi: 10.1007/s00442-009-1546-z
Dailer, M. L., Knox, R. S., Smith, J. E., Napier, M., & Smith, C. M. (2010). Using δ15N values in algal tissue to map locations and potential sources of anthropogenic nutrient inputs on the island of Maui, Hawai‘i, USA. Marine Pollution Bulletin, 60(5), 655-671. doi: 10.1016/j.marpolbul.2009.12.021
Salomon, A. K., Gaichas, S. K., Shears, N. T., Smith, J. E., Madin, E. M. P., & Gaines, S. D. (2010). Key Features and Context-Dependence of Fishery-Induced Trophic Cascades. Conservation Biology, 24(2), 382-394. doi: 10.1111/j.1523-1739.2009.01436.x
Choi, H., Engene, N., Smith, J. E., Preskitt, L. B., & Gerwick, W. H. (2010). Crossbyanols A-D, toxic brominated polyphenyl ethers from the hawai'ian bloom-forming cyanobacterium Leptolyngbya crossbyana. Journal of Natural Products, 73(4), 517-522. doi: 10.1021/np900661g
Barott, K. L., Caselle, J. E., Dinsdale, E. A., Friedlander, A. M., Maragos, J. E., Obura, D., ... Zgliczynski, B. (2010). The Lagoon at Caroline/Millennium Atoll, Republic of Kiribati: Natural History of a Nearly Pristine Ecosystem. Plos One.(e10950). doi: 10.1371/journal.pone.0010950

2009

Barott, K., Smith, J., Dinsdale, E., Hatay, M., Sandin, S., & Rohwer, F. (2009). Hyperspectral and Physiological Analyses of Coral-Algal Interactions. Plos One, 4(11). doi: 10.1371/journal.pone.0008043
Hillebrand, H., Borer, E. T., Bracken, M. E. S., Cardinale, B. J., Cebrian, J., Cleland, E. E., ... Smith, M. D. (2009). Herbivore metabolism and stoichiometry each constrain herbivory at different organizational scales across ecosystems. Ecology Letters, 12(6), 516-527. doi: 10.1111/j.1461-0248.2009.01304.x
Vermeij, M. J. A., Smith, J. E., Smith, C. M., Thurber, R. V., & Sandin, S. A. (2009). Survival and settlement success of coral planulae: independent and synergistic effects of macroalgae and microbes. Oecologia, 159(2), 325-336. doi: 10.1007/s00442-008-1223-7

2008

Smith, J. E., Kuwabara, J., Coney, J., Flanagan, K., Beets, J., Brown, D., ... Turner, J. (2008). An unusual cyanobacterial bloom in Hawai'i. Coral Reefs, 27(4), 851-851. doi: 10.1007/s00338-008-0417-0
Gruner, D. S., Smith, J. E., Seabloom, E. W., Sandin, S. A., Ngai, J. T., Hillebrand, H., ... Bolker, B. M. (2008). A cross-system synthesis of consumer and nutrient resource control on producer biomass. Ecology Letters, 11(7), 740-755. doi: 10.1111/j.1461-0248.2008.01192.x
Sandin, S. A., Smith, J. E., DeMartini, E. E., Dinsdale, E. A., Donner, S. D., Friedlander, A. M., ... Sala, E. (2008). Baselines and Degradation of Coral Reefs in the Northern Line Islands. Plos One, 3(2). doi: 10.1371/journal.pone.0001548

2007

Elser, J. J., Bracken, M. E. S., Cleland, E. E., Gruner, D. S., Harpole, W. S., Hillebrand, H., ... Smith, J. E. (2007). Global analysis of nitrogen and phosphorus limitation of primary producers in freshwater, marine and terrestrial ecosystems. Ecology Letters, 10(12), 1135-1142. doi: 10.1111/j.1461-0248.2007.01113.x
Williams, S. L., & Smith, J. E. (2007). A Global Review of the Distribution, Taxonomy, and Impacts of Introduced Seaweeds. Annual Review of Ecology, Evolution, and Systematics, 38(1), 327-359. doi: 10.1146/annurev.ecolsys.38.091206.095543
Hillebrand, H., Gruner, D. S., Borer, E. T., Bracken, M. E. S., Cleland, E. E., Elser, J. J., ... Smith, J. E. (2007). Consumer versus resource control of producer diversity depends on ecosystem type and producer community structure. Proceedings of the National Academy of Sciences of the United States of America, 104(26), 10904-10909. doi: 10.1073/pnas.0701918104

2006

Zuccarello, G. C., Critchley, A. T., Smith, J., Sieber, V., Lhonneur, G. B., & West, J. A. (2006). Systematics and genetic variation in commercial Kappaphycus and Eucheuma (Solieriaceae, Rhodophyta). Journal of Applied Phycology, 18(3-5), 643-651. doi: 10.1007/s10811-006-9066-2
Schaffelke, B., Smith, J. E., & Hewitt, C. L. (2006). Introduced macroalgae - a growing concern. Journal of Applied Phycology, 18(3-5), 529-541. doi: 10.1007/s10811-006-9074-2
Smith, J. E., Shaw, M., Edwards, R. A., Obura, D., Pantos, O., Sala, E., ... Rohwer, F. L. (2006). Indirect effects of algae on coral: algae-mediated, microbe-induced coral mortality. Ecology Letters, 9(7), 835-845. doi: 10.1111/j.1461-0248.2006.00937.x

2005

Conklin, E. J., & Smith, J. E. (2005). Abundance and spread of the invasive red algae, Kappaphycus spp., in Kane'ohe Bay, Hawai'i and an experimental assessment of management options. Biological Invasions, 7(6), 1029-1039. doi: 10.1007/s10530-004-3125-x
Smith, J. E., Runcie, J. W., & Smith, C. M. (2005). Characterization of a large-scale ephemeral bloom of the green alga Cladophora sericea on the coral reefs of West Maui, Hawai'i. Marine Ecology-Progress Series, 302, 77-91. doi: 10.3354/meps302077

2004

Smith, J. E., Smith, C. M., Vroom, P. S., Beach, K. L., & Miller, S. (2004). Nutrient and growth dynamics of Halimeda tuna on Conch Reef, Florida Keys: Possible influence of internal tides on nutrient status and physiology. Limnology and Oceanography, 49(6), 1923-1936.
Smith, J. E., Hunter, C. L., Conklin, E. J., Most, R., Sauvage, T., Squair, C., & Smith, C. M. (2004). Ecology of the Invasive Red Alga Gracilaria salicornia (Rhodophyta) on O'ahu, Hawai'i. Pacific Science, 58(2), 325-343.

2003

Runcie, J. W., & Smith, J. E. (2003). Special issue: nutrient dynamics in coastal ecosystems - linking physical and biological processes - Preface. Journal of Marine Systems, 42(3-4), 81-82. doi: 10.1016/s0924-7963(03)00067-8
Vroom, P. S., Smith, C. M., Coyer, J. A., Walters, L. J., Hunter, C. L., Beach, K. S., & Smith, J. E. (2003). Field biology of Halimeda tuna (Bryopsidales, Chlorophyta) across a depth gradient: comparative growth, survivorship, recruitment, and reproduction. Hydrobiologia, 501(1-3), 149-166. doi: 10.1023/a:1026287816324

2002

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

2001

Smith, J. E., Smith, C. M., & Hunter, C. L. (2001). An experimental analysis of the effects of herbivory and nutrient enrichment on benthic community dynamics on a Hawaiian reef. Coral Reefs, 19(4), 332-342.
Vroom, P. S., Smith, J. E., & Smith, C. M. (2001). Observations of reproduction in Rhipidosiphon javensis (Halimedineae, Bryopsidales) in Hawaii. Phycologia, 40(1), 97-100. doi: 10.2216/i0031-8884-40-1-97.1