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SHELF III Announcement



Ault, J.S., S.G. Smith, J.A. Bohnsack, J. Luo, M.H. Stevens, G.T. DiNardo, M.W. Johnson, D.R. Bryan, 2019. Length-based risk analysis for assessing sustainability of data-limited tropical reef fisheries. ICES Journal of Marine Science, 76(1): 165-180. doi:10.1093/icesjms/fsy123.

​​Babcock, K.K., F. Cesbron, W.F. Patterson III, S.B. Garner, L.A. Waidner, J.M. Caffrey, 2020. Changing Biogeochemistry and Invertebrate Community Composition at Newly Deployed Artificial Reefs in the Northeast Gulf of Mexico. Coastal and Estuarine Research. DOI 10.1007/s12237-020-00713-4.

Blank, N., S.D. Brooke, B.K. Walker, Spatial variation in hard bottom coral communities of the coastal west Florida Shelf. Bulletin of Marine Science. 98(0).

Boswell, K.M., G. Pedersen, J.C. Taylor, S. Labua, W.F. Patterson III, 2020. Examining the relationship between morphological variation and modeled broadband scattering responses of reef-associated fishes from the Southeast United States. Fisheries Research, 228. DOI:

Brooks, K.K., 2018. Changes in primary production, nutrient fluxes, and rates of succession following the deployment of an artificial reef system in the northeast Gulf of Mexico. M.S. thesis. University of West Florida. 

Burrows, M., J.S. Browning, M. Breitbart, S.A. Murawski, and E.B. Peebles, 2019. DNA barcoding reveals clear delineation between spawning sites for neritic versus oceanic fishes in the Gulf of Mexico. Fisheries Oceanography 28:228–239.

Cesbron, F., M.C. Murrell, M.E.Hagy, W.H. Jeffrey, W.F. Patterson III, J.M. Caffrey, 2019. Patterns in phytoplankton and benthic production on the shallow continental shelf in the northeastern Gulf of Mexico. Continental Shelf Research, 179: 105-114. DOI:

Chagaris, D.D., W.F. Patterson III, M.S. Allen, 2020. Relative effects of multiple stressors on reef food webs in the northern Gulf of Mexico revealed via ecosystem modelling. Frontiers in Marine Science. DOI: doi: 10.3389/fmars.2020.00513.

Daly-Engel, T.S., I.E. Baremore, R.D. Grubbs, S.J.B. Gulak, M.P. Enzenauer, R.T. Graham, 2018. Resurrection of the bigeye sixgill shark Hexanchus vitulus (Hexanchiformes, Hexanchidae), with comments on its distribution in the northwest Atlantic Ocean.  Mar Biodiv.

Gaither, M.R., B. Violi, H.W.I. Gray, F. Neat, J.C. Drazen, R.D. Grubbs, A. Roa-Varón, T. Sutton, A.R. Hoelzel, 2016. Depth as a driver of evolution in the deep sea: Insights from grenadiers (Gadiformes: Macrouridae) of the genus Coryphaenoides Molecular Phylogenetics and Evolution 104: 73-82.

Garner, S.B., K.M. Boswell, J.P. Lewis, J.H. Tarnecki, W.F. Patterson III, 2019. Effect of reef morphology and depth on fish community and tropic structure in the northcentral Gulf of Mexico. Estuarine, Coastal and Shelf Science. 230.

Gruss, A., E.A. Babcock, S.R. Sagarese, M. Drexler, D.D. Chagaris, C.H. Ainsworth, B. Penta, S. deRada, T.T. Sutton, 2016. Improving the spatial allocation of functional group biomasses in spatially-explicit ecosystem models: insights from three Gulf of Mexico Models. Bulletin of Marine Science, 92(4): 473-496. DOI:

Gruss, A., J.T. Thorson, E.A. Babcock, J.H. Tarnecki, 2017. Producing distribution maps for informing ecosystem-based fisheries management using a comprehensive survey database and spatio-temporal models. ICES Journal of Marine Science. DOI:10.1093/icesjms/fsx120.

Gruss, A. J.T. Thorson, S.R. Sagarese, E.A. Babcock, M. Karnauskas, J.F. Walter III, M. Drexler, 2017. Ontogenetic spatial distributions of red grouper (Epinphelus morio) and gag grouper (Mycteroperca microlepis) in the U.S. Gulf of Mexico. Fisheries Research, 193: 129-142. DOI:

Gruss, A., D.D. Chagaris, E.A. Babcock, J.H. Tarnecki, 2018. Assisting ecosystem-based fisheries management efforts using a comprehensive survey database, a large environmental database, and generalized additive models. Marine and Coastal Fisheries Dynamics, Management, and Ecosystem Science, 10: 40-70. DOI: 10.1002/mcf2.10002.

Gruss, A., M.D. Drexler, C.H. Ainsworth, E.A. Babcock, J.H. Tarnecki, M.S. Love, 2018. Producing distribution maps for a spatially-explicit ecosystem model using large monitoring and environmental databases and a combination of interpolation and extrapolation. Frontiers in Marine Science, 5(16). DOI: doi: 10.3389/fmars.2018.00016.

Gruss, A., M.D. Drexler, C.H. Ainsworth, J.J. Roberts, R.H. Carmichael, N.F. Putnam, P.M. Richards, E. Chancellor, E.A. Babcock, M.S. Love, 2018. Improving the spatial allocation of marine mammal and sea turtle biomasses in spatially explicit ecosystem models. Marine Ecology Progress Series, 602: 255-274. DOI:

Gruss, A., H.A. Perryman, E.A. Babcock, S.R. Sagarese, J.T. Thorson, C.H. Ainsworth, E.J. Anderson, K. Brennan, M.D. Campbell, M.C. Christman, S. Cross, M.D. Drexler, J.M. Drymon, C.L. Gardner, D.S. Hanisko, J. Hendon, C.C. Koenig, M. Love, F. Martinez-Andrade, J. Morris, B.T. Noble, M.A. Nuttall, J. Osborne, C. Pattengill-Semmens, A.G. Pollack, T.T. Sutton, T.S. Switzer, 2018. Monitoring programs of the U.S. Gulf of Mexico: inventory, development and use of a large monitoring database to map fish and invertebrate spatial distributions. Review of Fisheries Biology, 28: 667-691. DOI:

Gruss, A., M.D. Drexler, E. Chancellor, C.H. Ainsworth, J.S. Gleason, J.M. Tirpak, M.S. Love, E.A. Babcock, 2019. Representing species distributions in a spatially-explicit ecosystem models from presence-only data. Fisheries Research, 210: 89-105. DOI: 

Kerr, M., J. Browning, E-M Bønnelycke, Y. Zhang, C. Hu, M. Armenteros, S. Murawski, E. Peebles, M. Breitbart, 2020. DNA barcoding of fish eggs collected off northwestern Cuba and across the Florida Straits demonstrates egg transport by mesoscale eddies. Fisheries Oceanography 29: doi: 10.1111/fog.12475

Larsen, M.E., D.C. Abel, D.P. Crane, R.D. Grubbs, 2020. Differences in Relative Heart Mass Among Deep-sea and Coastal Sharks with Increasing Depth. Marine Biology 167(11): 1-8.

Larsen, M.E., D.C. Abel, D.P. Crane, S.L. Parker, P.H. Yancey, B.A. Keller, R.D. Grubbs, 2019. Unique Osmoregulatory Morphology in Primitive Sharks: An Intermediate State Between Holocephalan and Derived Shark Secretory Morphology. J. of Fish Biology.

Lembke, C., S. Lowerre-Barbieri, D. Mann, J.C. Taylor, 2018. Using three acoustic technologies on underwater gliders to survey fish.  Marine Technology Society Journal, 52(6): 39-52.

Lirman, D., Ault, J.S., Fourqurean, J.W., Lorenz, J.J. 2019. The coastal marine ecosystem of south Florida, United States. World Seas: an environmental evaluation. 2nd Ed. Sheppard, C., ed. Volume I: Europe, The Americas, and West Africa. Chapter 17, Pages 427-444.

Luo, J., Ault , J.S., Ungar, B., Smith, S.G., Larkin, M.F., Davidson, T.N., Bryan, D.R., Farmer, N.A., Holt, S., Alford, S., Adams, A., Humston, R., Marton, A., Mangum, D., Kleppinger, R., Requejo, A., Robertson, J. 2020. Migrations and movements of Atlantic tarpon revealed by two decades of satellite tagging. Fish and Fisheries 21(2): 290-318. doi: 10.1111/faf.12430.

O’Farrell, H. Gruss, S.R. Sagarese, E.A. Babcock, K.A. Rose, 2017. Ecosystem modeling in the Gulf of Mexico: current status and future needs to address ecosystem-based fisheries management and restoration activities. Review of Fisheries Biology, 27: 587-614. DOI: 10.1007/s11160-017-9482-1.

Peebles, E., K. Boswell, M. Breitbart, J. Browning, M. Burrows, D. Chagaris, S. Grasty, C. Lembke, J. Locascio, S. Murawski, B. V. Nguyen, M. Schram, C. Stallings, N. Tucker, and J. Vecchio, 2018. Spawning habitat & early-life linkages to fisheries (SHELF): Preliminary report for the two-year pilot study, 2017-18.Technical report submitted to the Florida RESTORE Act Centers of Excellence Program.

Perrot, V, W.M. Landing, R.D. Grubbs, V.J.M. Salters, 2019. Mercury bioaccumulation in tilefish from the northeastern Gulf of Mexico 2 years after the Deepwater Horizon Oil Spill: Insights from Hg, C, N and S stable isotopes, Science of the Total Environment 666: 828-838.

Perrot, V, W.M. Landing, R.D. Grubbs, V.J.M. Salters, 2019. Mercury bioaccumulation in tilefish from the northeastern Gulf of Mexico 2 years after the Deepwater Horizon Oil Spill: Insights from Hg, C, N and S stable isotopes, Science of the Total Environment 666: 828-838.

Polidoro, B., C.W. Matson, M.A. Ottinger, D.A. Renegar, I.C. Romero, D. Schlenk, J.P. Wise Sr., J.B. González, P. Bruns, K. Carpenter, D.C. Rojas, T.K. Collier, T.F. Duda Jr., P. González-Díaz, R. Di Giulio, R.D. Grubbs, J.C. Haney, J.P. Incardona, G. Horta-Puga, C. Linardich,.J.A. Moore, D. Pech, S.P. Valderrama, G.M. Ralph, K. Strongin,.A.H. Ringwood, B. Würsig, 2021. A multi-taxonomic framework for assessing relative petrochemical vulnerability of marine biodiversity in the Gulf of Mexico. Science of The Total Environment 763: p.142986.

Prohaska, B.K., B.S. Talwar, R.D. Grubbs, 2021. Blood biochemical status of deep-sea sharks following longline capture in the Gulf of Mexico. Conservation Physiology 9(1),

Putman, N.F., E.E. Seney, P. Verley, D. Shaver, M. López-Castro, M. Cook, V. Guzmán, B. Brost, S. Ceriani, M. Díaz, J. Raúl, L.J. Peña, M. Tzeek, R. Valverde, C. Cantón, L. Howell, J. Ley, M. Tumlin, W. Teas, C. Caillouet Jr., E. Cuevas, B. Gallaway, P. Richards, and K.L. Mansfield. 2019. Predicted distributions and abundances of the sea turtle “lost years” in the western North Atlantic Ocean. Ecography. DOI: 10.1111/ecog.04929.

Stevens, M.H., Smith, S.G., Ault, J.S. 2019. Life history demographic parameter synthesis for Florida and Caribbean reef fishes. Fish and Fisheries 20: 1196-1217. doi: 10.1111/faf.12405.

Walker, B.K., S. Eagan, C. Ames, S. Brooke, S Keenan, R. Baumstark, 2020. Shallow water coral communities support the separation of marine ecoregions on the west-central Florida Gulf Coast. Frontiers in Ecology and Evolution. DOI: 10.3389/fevo.2020.00210

Walter, R.P., D. Roy, N.E. Hussey, B. Stelbrink, K.M. Kovacs, C. Lydersen, B.C. McMeans, J. Svavarsson, S.T. Kessel, S.B. Porsmoguer, S. Wildes, C. Tribuzio, S.E. Campana, S. Petersen, R.D. Grubbs, D.D. Heath, K.J. Hedges, A.T. Fisk, 2017. Origins of the Greenland Shark (Somniosus microcephalus): impacts of Ice-olation and Introgression. Ecology and Evolution 7(19), pp.8113-8125.


Breitbart, M., M. Kerr, M.J. Schram, I. Williams, G. Koziol, E. Peebles, C.D. Stallings, 2023. Evaluation of DNA metabarcoding for identifying fish eggs: a case study on the West Florida Shelf. PeerJ. DOI: 10.77/peerj.15016.

Nguyen, B.V.V., 2020. Investigation of Retention Versus Export of Planktonic Fish Eggs in the Northeastern Gulf of Mexico. M.S. thesis, University of South Florida.

Vecchio, J.L., E.B. Peebles, 2020. Spawning origins and ontogenetic movements for demersal fishes: An approach using eye-lens stable isotopes. Estuarine, Coastal, and Shelf Science, 246.

Vecchio, J.L., J.L Ostroff, E.B. Peebles, 2021. Isotopic characterization of lifetime movement by two demersal fishes from the northeastern Gulf of Mexico. Marine Ecology Progress Series, 657: 161-172.

Vecchio, J.L. and E.B. Peebles, 2022, Lifetime-scale ontogenetic movement and diets of red grouper inferred using a combination of instantaneous and archival methods. Environmental Biology of Fishes.


Deitch, M.J., H.N. Gancel, A.C. Croteau, J.M. Caffrey, W. Scheffel, B. Underwood, J.W. Muller, D. Boudreau, C.G. Cantrell, M.J. Posner, J. Bibza, A. McDowell, B. Albrecht, 2021. Adaptive management as a foundational framework for developing collaborative estuary management programs, Journal of Environmental Management, 295, DOI:

Phillips, K.F., K.R. Martin, G.D. Stahelin, A.E. Savage, and K.L. Mansfield. Genetic variation among sea turtle life stages and species suggests connectivity among ocean basins. Ecology and Evolution. Volume 12, Issue 11, 30 October, 2022. DOI: Open access. 

Croteau, A.C., H.N. Gancel, T.G. Gebremicael, J.M. Caffrey, M.J. Deitch, 2023. Implications of changing trends in hydroclimatic and water quality parameters on estuarine habitats in the Gulf Coastal Plain, Frontiers in Ecology and Evolution. 11. DOI: