Duffy, J.E., L.A. Amaral-Zettler, D.G. Fautin, G. Paulay, T.A. Rynearson, H.M. Sosik, and J.J. Stachowicz. In press. Envisioning a marine biodiversity observation network. BioScience.

Whalen*, M.A., J.E. Duffy, and J.B. Grace. In press. Field experimental evidence for mesograzer control of primary producers in a seagrass bed food web. Ecology.

Lefcheck, J.S., M.A. Whalen, T.M. Davenport*, J.P. Stone*, and J.E. Duffy. In press. Diet mixing effects on consumer fitness: A meta-analysis. Ecology.

Ruckelshaus, M., S. Doney, H. Galindo, J. Barry, F. Chan, J.E. Duffy, C. English, S. Gaines, J. Grebmeier, A. Hollowed, N. Knowlton, J. Polovina, N. Rabalais, B. Sydeman, L. Talley. In press. Securing ocean benefits in the face of climate change. Marine Policy.

Blake, R.E. and J.E. Duffy. 2012. Changes in biodiversity and environmental stressors influence community structure of an experimental eelgrass (Zostera marina) system. Marine Ecology Progress Series 470:41-54.

Naeem, S., J.E. Duffy, and E. Zavaleta. 2012. The Functions of Biological Diversity in an Age of Extinction. Science 336:1401-1406.

Cardinale, B.J., J.E. Duffy, A. Gonzalez, D.U. Hooper, C. Perrings, P. Venail, A. Narwani, G.M. Mace, D. Tilman, D.A. Wardle, A.P. Kinzig, G.C. Daily, M. Loreau, J.B. Grace, A. Larigauderie, D. Srivastava, and S. Naeem. 2012. Biodiversity loss and its impact on humanity. Nature 486:59-67 (doi:10.1038/nature11148).  

Hooper, D.U., E.C. Adair, B.J. Cardinale, J.E.K. Byrnes, B.A. Hungate, K.L. Matulich, A. Gonzalez, J.E. Duffy, L. Gamfeldt, and M.I. O’Connor. 2012. A global synthesis reveals biodiversity loss as a major driver of ecosystem change. Nature 486:105-108 (doi:10.1038/nature11118).

Poore, A.G.B., A.H. Campbell, R.A. Coleman, G.J. Edgar, V. Jormalainen, P.L. Reynolds, E.E. Sotka, J.J. Stachowicz, R.B. Taylor, M.A. Vanderklift, and J.E. Duffy. 2012. Global patterns in the impact of marine herbivores on benthic primary producers. Ecology Letters 15:912-922. 

Hultgren, K.M., and J.E. Duffy. 2012. Phylogenetic community ecology and the role of social dominance in sponge-dwelling shrimp. Ecology Letters 15: 704–713 (doi: 10.1111/j.1461-0248.2012.01788.x


Duffy J.E.  2010.  Crustacean Social Evolution. In: Breed M.D. and Moore J. (eds.) Encyclopedia of Animal Behavior, volume 1, pp. 421-429 Oxford: Academic Press.  PDF

Douglass, J.G., K.E. France, J.P. Richardson, and J.E. Duffy.  2010.  Seasonal and interannual change in a Chesapeake Bay eelgrass community: Insights into biotic and abiotic control of community structure.  Limnology and Oceanography 55(4):1499-1520.  PDF

Hultgren, K.M., K.S. Macdonald III, and J.E. Duffy. 2010. Sponge-dwelling snapping shrimp of Curaçao, with descriptions of three new species. Zootaxa 2372:221-262.  PDF

Hultgren, K.M. and J.E. Duffy.  2010.  Sponge host characteristics shape the community structure of their shrimp associates.  Marine Ecology Progress Series 407:1-12.  PDF

Duffy, J.E.  2010. Sea changes: structure and functioning of emerging marine communities.  Pages 95-113 in: H.A. Verhoef and P.J. Morin, editors. Community Ecology. Processes, Models and Applications. Oxford University Press.

Duffy, J.E.  2009. The future of marine fish resources. AIBS Action BioScience

Duffy, J.E. and K.S. Macdonald III.  2009.  Kin structure, ecology, and the evolution of social organization in shrimp: A comparative analysis. Proceedings of the Royal Society of London B Biological Sciences. PDF

Duffy, J.E. 2009. Why biodiversity is important to functioning of real-world ecosystems. Frontiers in Ecology and the Environment 7:437-444.  PDF

Spivak, A.C., E.A. Canuel, J.E. Duffy, and J.P. Richardson. 2009. Nutrient enrichment and food web composition affect ecosystem metabolism in an experimental seagrass habitat. PLoS One 4(10): e7473:1-13.  PDF

Macdonald III, K.S., K.M. Hultgren, and J.E. Duffy. 2009. Sponge-dwelling snapping shrimp of Discovery Bay, Jamaica, with descriptions of four new species. Zootaxa 2199:1-57PDF

Duffy, J.E., D.S. Srivastava, J. McLaren, M. Sankaran, J. Griffin, M. Emmerson, M. Solan, and K.E. Jones. 2009. Forecasting decline in ecosystem services under realistic scenarios of extinction. Pages 60-77 in: Naeem, S., D.E. Bunker, and A. Hector (editors). Biodiversity, Ecosystem Functioning, and Human Wellbeing: An Ecological and Economic Perspective. Oxford University Press.

Cardinale, B.J., J.E. Duffy, D.S. Srivastava, M. Loreau, M. Thomas, and M. Emmerson. 2009. Towards a Food-web perspective on biodiversity and ecosystem functioning. Pages 105-120 in: Naeem, S., D.E. Bunker, and A. Hector (editors). Biodiversity, Ecosystem Functioning, and Human Wellbeing: An Ecological and Economic Perspective. Oxford University Press.

Srivastava, D.S., B.J. Cardinale, A.L. Downing, J.E. Duffy, C. Jouseau, M. Sankaran, and J.P. Wright. 2009. Diversity has stronger top-down than bottom-up effects on decomposition. Ecology 90:1073-1083.  PDF

Cardinale, B.J., D. Srivastava, J.E. Duffy, J. Wright, A. Downing, M. Sankaran, C. Jouseau, M. Cadotte, I. Carroll, J. Weis, A. Hector, and M. Loreau. 2009. Effects of biodiversity on the functioning of ecosystems: A summary of 164 experimental manipulations of species richness. Ecology 90:854 (Ecological Archives E090-060).  PDF

Spivak, A.C., E.A. Canuel, J.E. Duffy, J.G. Douglass, and J.P. Richardson. 2009. Community composition and nutrient availability alter sediment organic matter composition in a seagrass bed: a field experiment. Marine Ecology Progress Series 376: 55-67.   PDF

Bruno J.F., K.E. Boyer, J.E. Duffy, and S.C. Lee. 2008. Relative and interactive effects of plant and grazer richness in a benthic marine community. Ecology 89:2518-2528.  PDF

Douglass*, J.G., J.E. Duffy, and J.F. Bruno. 2008. Herbivore and predator diversity interactively affect ecosystem properties in marine macroalgal communities. Ecology Letters 11:598-608. PDF

Rubenstein, D.R., B.V. McCleery, and J.E. Duffy. 2008. Microsatellite development suggests evidence of polyploidy in the social sponge-dwelling snapping shrimp Zuzalpheus brooksi. Molecular Ecology Resources 8:890-894. PDF

Tóth, E. and J.E. Duffy. 2008. Influence of sociality on allometric growth and morphological differentiation in sponge-dwelling alpheid shrimp. Biological Journal of the Linnean Society 94:527-540.

Long, Z.T., J.F. Bruno, and J.E. Duffy. 2007. Biodiversity mediates productivity through different mechanisms at adjacent trophic levels. Ecology 88:2821-2829.  PDF

Stachowicz, J.J., J.F. Bruno, and J.E. Duffy. 2007. Understanding the effects of marine biodiversity on community and ecosystem processes. Annual Review of Ecology, Evolution, and Systematics 38:739-766.  PDF

Douglass, J.G., J.E. Duffy, A.C. Spivak, and J.P. Richardson. 2007. Nutrient versus consumer control of community structure in a Chesapeake Bay eelgrass habitat. Marine Ecology Progress Series 348:71-83.  PDF

Spivak, A.C., E.A. Canuel, J.E. Duffy, and J.P. Richardson. 2007. Top-down and bottom-up controls on sediment organic matter composition in an experimental seagrass ecosystem. Limnology and Oceanography 52: 2595-2607.  PDF

Ríos, R. and J.E. Duffy. 2007. A review of the sponge-dwelling snapping shrimp from Carrie Bow Cay, Belize, with description of Zuzalpheus, new genus, and six new species (Crustacea: Decapoda: Alpheidae). Zootaxa 1602:1-89.  PDF

Duffy, J.E., B.J. Cardinale, K.E. France, P.B. McIntyre, E. Thébault, and M. Loreau. 2007. The functional role of biodiversity in food webs: Incorporating trophic complexity.  Ecology Letters 10:522-538.  PDF

Canuel, E.A., A.C. Spivak, E.J. Waterson*, and J.E. Duffy. 2007. Biodiversity and food web structure influence short-term accumulation of sediment organic matter in an experimental seagrass system. Limnology and Oceanography, 52: 590-602PDF

Worm, B., E.B. Barbier, N. Beaumont, J.E. Duffy, C. Folke, B.S. Halpern, J.B.C. Jackson, H.K. Lotze, F. Micheli, S.R. Palumbi, E. Sala, K.A. Selkoe, J.J. Stachowicz, and R. Watson. 2006. Impacts of biodiversity loss on ocean ecosystem services. Science 314:787-790PDF

Cardinale, B.J., Srivastava, D.S., Duffy, J.E., Wright, J.P., Downing, A.L., Sankaran, M. and Jouseau, C. 2006. Effects of biodiversity on the functioning of trophic groups and ecosystems: A meta-analysis. Nature 443:989-992. (featured as Must-Read [6.0] paper in Faculty of 1000). PDF

France, K.E. and J.E. Duffy. 2006. Biodiversity, dispersal, and scale interactively affect stability of ecosystem function in seagrass metacommunities. Nature 441:1139-1143. (featured as Must-Read [4.8] paper in Faculty of 1000).  PDF

Bruno, J.F., S.C. Lee, J.S. Kertesz, R.C. Carpenter, Z.T. Long, and J.E. Duffy. 2006. Partitioning the effects of algal species identity and richness on benthic marine primary production. Oikos 115:170-178.  PDF

Macdonald, K.S. III and J.E. Duffy. 2006. Two new species of sponge-dwelling snapping shrimp from the Belizean Barrier Reef, with a synopsis of the Synalpheus brooksi species complex. American Museum Novitates 3543: 1-22PDF

Macdonald, K.S. III, R. Ríos, and J.E. Duffy. 2006. Biodiversity, host specificity, and dominance by eusocial species among sponge-dwelling alpheid shrimp on the Belize Barrier Reef. Diversity and Distributions 12:165-178.  PDF

Duffy, J.E. 2006. Biodiversity and the functioning of seagrass ecosystems. Marine Ecology Progress Series 311:233-250 (Invited). PDF

Duffy, J.E. and J.J. Stachowicz. 2006. Why biodiversity is important to oceanography: potential roles of genetic, species, and trophic diversity in pelagic ecosystem processes. Marine Ecology Progress Series 311:179-189PDF

France, K.E. and J.E. Duffy. 2006. Consumer diversity mediates invasion dynamics at multiple trophic levels. Oikos 113:515-529.  PDF

Duffy, J.E., J.P. Richardson, and K.E. France. 2005.  Ecosystem consequences of diversity depend on food chain length in estuarine vegetation. Ecology Letters 8:301-309.  PDF

Tóth, E. and J.E. Duffy. 2005. Coordinated group response to nest intruders in social shrimp. Proceedings of the Royal Society of London: Biology Letters 1:49-52.

Macdonald, K.S. III, L. Yampolsky, and J.E. Duffy. 2005. Molecular and Morphological Evolution of the amphipod radiation of Lake Baikal. Molecular Phylogenetics and Evolution 35:323-343. PDF

Valentine, J. and J.E. Duffy. 2005. The central role of grazing in seagrass ecology. In: A.W.D. Larkum, R.J. Orth, and C.M. Duarte (eds). Seagrass Biology: A Treatise. CRC Press, Boca Raton, FL, in press.

Morrison, C. L., R. Ríos, and J.E. Duffy.  2004. Phylogenetic evidence for an ancient rapid radiation of Caribbean sponge-dwelling snapping shrimps (Synalpheus). Molecular phylogenetics and Evolution 30:563-58. PDF

Rhode, J.M. and J.E. Duffy. 2004. Relationships between bed age, bed size, and genetic structure in Chesapeake Bay (Virginia, USA) eelgrass (Zostera marina L). Conservation Genetics 5: 1-11.  PDF

Rhode, J.M. and J.E. Duffy. 2004. Seed Production from the Mixed Mating System of Chesapeake Bay (USA) Eelgrass (Zostera marina L; Zosteraceae).  American Journal of Botany 91:192-197.  PDF

Worm, B. and J.E. Duffy. 2003. Biodiversity, productivity, and stability in real food webs. Trends in Ecology and Evolution 18:628-632.  PDF

Duffy, J.E. 2003. Biodiversity loss, trophic skew, and ecosystem functioning. Ecology Letters 6:680-687.  PDF

Duffy, J.E., E.A. Canuel, and J.P. Richardson. 2003. Grazer diversity and ecosystem functioning in seagrass beds. Ecology Letters 6:637-645. PDF

Duffy, J.E.  2003.  The ecology and evolution of eusociality in sponge-dwelling shrimp. In: S. Higashi (editor). Genes, behavior, and evolution in social insects. University of Hokkaido Press, Sapporo, Japan.  PDF

Sagasti, A., J.E. Duffy, and L.C. Schaffner. 2003.  Estuarine epifauna recruit despite periodic hypoxic stress. Marine Biology 142: 111-122. PDF

Duffy, J.E. 2002. Biodiversity and ecosystem function: the consumer connection. Oikos 99:201-219. PDF

Duffy, J.E., C.L. Morrison, and K.S. Macdonald.  2002. Colony defense and behavioral differentiation in the eusocial shrimp Synalpheus regalis. Behavioral Ecology and Sociobiology 51:488-495.  PDF

Sagasti, A., L.C. Schaffner, and J.E. Duffy. 2001.  Effects of periodic hypoxia on mortality, feeding and predation in an estuarine epifaunal community. Journal of Experimental Marine Biology and Ecology 258:257-283.  PDF

Duffy, J.E. and A.M. Harvilicz. 2001. Species-specific impacts of grazing amphipods in an eelgrass-bed community. Marine Ecology Progress Series 223:201-211.  PDF

Parker, J.D., J.E. Duffy, and R.J. Orth  2001. Experimental tests of plant diversity effects on epifaunal diversity and production in a temperate seagrass bed. Marine Ecology Progress Series 224:55-67.  PDF

Duffy, J.E., K.S. Macdonald, J.M. Rhode, and J.D. Parker.  2001. Grazer diversity, functional redundancy, and productivity in seagrass beds: an experimental test. Ecology 82:2417-2434.  PDF

Duffy, J.E. and M.E. Hay.  2001.  The ecology and evolution of marine consumer-prey interactions. Pages 131-157 in: M.D. Bertness, M.E. Hay, and S.D. Gaines, editors. Marine Community Ecology. Sinauer Associates, Sunderland, MA.  PDF

Sagasti, A., L.C. Schaffner and J.E. Duffy.  2000.  An epifaunal community thrives in an estuary with brief hypoxic episodes. Estuaries 23:474-487.  PDF

Duffy, J.E., C.L. Morrison, and R. Ríos. 2000. Multiple origins of eusociality among sponge-dwelling shrimps (Synalpheus). Evolution 54: 503-516.  PDF

Duffy, J.E. and M.E. Hay. 2000. Strong impacts of grazing amphipods on the organization of a benthic community. Ecological Monographs 70:237-263.  PDF

Ríos, R. and J.E. Duffy. 1999. Description of Synalpheus williamsi, a new species of sponge-dwelling shrimp (Crustacea: Decapoda: Alpheidae), with remarks on its first larval stage. Proceedings of the Biological Society of Washington 112:541-552.

Duffy, J.E. and K.S. Macdonald. 1999. Colony structure of the social snapping shrimp Synalpheus filidigitus in Belize. Journal of Crustacean Biology 19:283-292.  PDF

Duffy, J.E. 1998. On the frequency of eusociality in snapping shrimps with description of a new eusocial species. Bulletin of Marine Science 62:387-400.  PDF

Duffy, J.E. 1996. Eusociality in a coral-reef shrimp. Nature 381:512-514.  PDF

Duffy, J.E. 1996. Species boundaries, specialization, and the radiation of sponge-dwelling alpheid shrimp. Biological Journal of the Linnean Society 58:307-324.  PDF

Duffy, J.E. 1996. Resource-associated population subdivision in a symbiotic coral-reef shrimp. Evolution 50:360-373.  PDF

Duffy, J.E. 1996. Synalpheus regalis, new species, a sponge-dwelling shrimp from the Belize Barrier Reef, with comments on host specificity in Synalpheus. Journal of Crustacean Biology 16:564-573.  PDF

Duffy, J.E. and M.E. Hay. 1994. Herbivore resistance to seaweed chemical defense: the roles of mobility and predation risk. Ecology 75:1304-1319.  PDF

Pennings, S.C., S.R. Pablo, V.J. Paul, and J.E. Duffy. 1994. Effects of sponge secondary metabolites in different diets on feeding by three groups of consumers. Journal of Experimental Marine Biology and Ecology 180:137-149.

Duffy, J.E. 1993. Genetic population structure in two tropical sponge-dwelling shrimps that differ in dispersal potential. Marine Biology 90:127-138.

Duffy, J.E. 1992. Host use patterns and demography in a guild of tropical sponge-dwelling shrimps. Marine Ecology Progress Series 90:127-138.  PDF

Duffy, J.E. and V.J. Paul. 1992. Prey nutritional quality and the effectiveness of chemical defenses against tropical reef fishes. Oecologia 90:333-339.  PDF

Duffy, J.E. and M.E. Hay. 1991. Host plants as food and shelter: determinants of food choice in an herbivorous marine amphipod. Ecology 72: 1286-1298.  PDF

Duffy, J.E. and M.E. Hay. 1991. Amphipods are not all created equal: a reply to Bell. Ecology 72:354-358.  PDF

Duffy, J.E. 1990. Amphipods on seaweeds: partners or pests? Oecologia 83:267-276.  PDF

Duffy, J.E. and M.E. Hay. 1990. Seaweed adaptations to herbivory. BioScience 40:368-376.  PDF

Hay, M.E., J.E. Duffy, and W. Fenical. 1990. Host-plant specialization decreases predation on a marine amphipod: an herbivore in plant's clothing. Ecology 71:733-743.  PDF

Hay, M.E., J.E. Duffy, V.J. Paul, P.E. Renaud, and W. Fenical. 1990. Specialist herbivores reduce their susceptibility to predation by feeding on the chemically defended seaweed Avrainvillea longicaulis. Limnology and Oceanography 35:1734-1743.  PDF

Hay, M.E., J.R. Pawlik, J.E. Duffy, and W. Fenical. 1989. Seaweed-herbivore-predator interactions: host-plant specialization reduces predation on small herbivores. Oecologia 81:418-427.  PDF

Hay, M.E., J.E. Duffy, and W. Fenical. 1988. Seaweed chemical defense: among-compound and among-herbivore variance. Proceedings of the Sixth International Coral Reef Symposium, Townsville, Australia 3:43-48.

Hay, M.E., J.E. Duffy, W. Fenical, and K. Gustafson. 1988. Chemical defense in the seaweed Dictyopteris delicatula: differential effects against reef fishes and amphipods. Marine Ecology Progress Series 48:185-192.  PDF

Hay, M.E., J.E. Duffy, C.A. Pfister, and W. Fenical. 1987. Chemical defense against marine herbivores: are amphipods insect equivalents? Ecology 68:1567-1580.  PDF

Paul, V.J., M.E. Hay, J.E. Duffy, W. Fenical, and K. Gustafson. 1987. Chemical defense in the seaweed Ochtodes secundiramea (Montagne) Howe (Rhodophyta): effects of its monoterpenoid components upon diverse coral-reef herbivores. Journal of Experimental Marine Biology and Ecology 114:249-260.  PDF

Duffy, J.E. and S. Tyler. 1984. Quantitative differences in mitochondrial ultrastructure of a thiobiotic and an oxybiotic turbellarian. Marine Biology 83:95-102.