We promote interdisciplinary collaboration within FIU and beyond to address local and regional issues of environmental contamination. Over the course of this project, we will provide various tools to aid both internal and external partners in this collaborative work.

This page is a portal to our products and outcomes, including information from our original proposal, presentation slides about the Center and its projects, publications, application information for interested students, funding forms for current participants, citation information and project databases.

Publications & Related Data

  • 2024 Publications

    Annunziato, M., et al. (2024). "An Integrated Metabolomics-Based Model, and Identification of Potential Biomarkers, of Perfluorooctane Sulfonic Acid (PFOS) Toxicity in Zebrafish Embryos" - Accepted in Environmental Toxicology and Chemistry.

    Cardé, J., Litz, J., Brossard, A., Wicker, J., Contillo, J., Kiszka, J. (submission January-February 2024). Long-term dynamics of the home range and fine-scale population structure of bottlenose dolphins in an urban lagoon in Southern Florida. Aquatic Conservation: Marine and Freshwater Ecosystems (under NOAA internal review).

    Cardé, J., Litz, J., Bouveroux, T., Brossard, A., Wicker, J., Contillo, J., Kiszka, J. (submission January-February 2024). Social structure of coastal bottlenose dolphins over three decades of increasing human impacts in a subtropical lagoon in South Florida, USA. Behavioral Ecology and Sociobiology (under NOAA internal review).

    Cardé, J., Caputo, M., Litz, J., Brossard, A., Wicker, J., Contillo, J., Kiszka, J. (submission February-March 2024). Community-level variation of the foraging ecology of coastal bottlenose dolphins (Tursiops truncatus) in a subtropical lagoon experiencing significant seagrass decline in Southern Florida. Marine Ecology Progress Series. (Under NOAA internal review).

    Rojas et al., “Combining Multi-Satellite Remote and In-situ Sensing for Autonomous Underwater Vehicle Localization and Navigation.” (in Review)

    Collins, S.B., Bracken-Grissom, H.D. Accepted. The Language of Light: a review of bioluminescence in deep-sea decapods. Biological Bulletin.

    Fernandez-Rojas, M.*, Fuller, C.N.*, Valadares Tose, L., Willets, M., Park, M.A., Bhanu, N.V., Garcia, B.A., Fernandez-Lima, F. Histone Modification Screening using Liquid Chromatography, Trapped Ion Mobility Spectrometry, and Time-Of-Flight Mass Spectrometry. Accepted by JoVE, awaiting publication.

    Heath, Courtney, “Prioritization of Emerging Pollutants Used for Fingerprinting for Specific Water Sources,” Emerging Pollutants, UNESCO: Singer, in review

    Helgoe, Joshua, “Triggers, Cascades, and Endpoints: connecting the dots of coral bleaching mechanisms” Biological Reviews - submitted

    Paduani, M., Ross, M. & Odom, G. Mangrove Forests of Biscayne Bay, FL, USA may Act as Sinks for Plastic Debris. Wetlands 44, 32 (2024). https://doi.org/10.1007/s13157-024-01785-9

    Rodriguez-Casariego, J.A., Mercado-Molina, A., Lemos, L.S. et al. Multi-omic characterization of mechanisms contributing to rapid phenotypic plasticity in the coral Acropora cervicornis under divergent environments. Coral Reefs 43, 53–66 (2024). https://doi.org/10.1007/s00338-023-02446-9

  • 2023 Publications

    Anjuman, A., Xiang, Y., Liu, G. et al. Compositional and spectroscopic analysis of dissolved organic matter samples from Everglades periphyton and water. Environ Sci Pollut Res 30, 106502–106513 (2023). https://doi.org/10.1007/s11356-023-29461-1

    Annunziato, M.; Bashirova, N.; Eeza, M.N.H.; Lawson, A.; Benetti, D.; Stieglitz, J.D.; Matysik, J.; Alia, A.; Berry, J.P. High-Resolution Magic Angle Spinning (HRMAS) NMR Identifies Oxidative Stress and Impairment of Energy Metabolism by Zearalenone in Embryonic Stages of Zebrafish (Danio rerio), Olive Flounder (Paralichthys olivaceus) and Yellowtail Snapper (Ocyurus chrysurus). Toxins 2023, 15, 397. https://doi.org/10.3390/toxins15060397

    Binder BM, Rieucau G, Locascio JV, Taylor JC, Boswell KM. 2023. Active acoustic surveys reveal coastal fish community resistance to an environmental perturbation in South Florida. PeerJ 11:e14888 https://doi.org/10.7717/peerj.14888

    Bradbury, M. (2023). Site prioritization and the reproduction of inequity in the restoration of Biscayne Bay. The Canadian Geographer, 67(1), 92–105. https://doi.org/10.1111/cag.12817

    Campbell, L. J., Castillo, N.A., Dunn, C. D., Bose, S. M., Perez, A., Schmitter-Soto, J. J., Mejri, S. C., Boucek, R. E., Santos, R. O., Adams, A. J., Rehage, J. S., Goldberg, T. L. (2023). Gill microbiomes accurately predict the geographic origin of bonefish (Albula vulpes) when combined with machine learning models. Environ Biol Fish. https://doi.org/10.1007/s10641-023-01462-6

    Campbell, L.J., Castillo, N.A., Shenker, J., Owens, L.A., Santos, R.O., Adams, A.J., Rehage, J.S., Denton, K.E., Goldberg, T.L. (2022). Bone appetite: DNA metabarcoding as a non-lethal alternative to morphological dietary assessment in Atlantic bonefish (Albula vulpes). Environ Biol Fish. https://doi.org/10.1007/s10641-022-01328-3

    Castillo, N.A., James, W.R., Santos, R.O., Rezek, R., Cerveny, D., Boucek, R.E., Adams, A.J., Fick, J., Brodin, T., Rehage, J.S. (2023). Understanding pharmaceutical exposure and the potential for effects in marine biota: a survey of bonefish (Albula vulpes) across the Caribbean Basin. Chemosphere, 349(3):140949. https://doi.org/ 10.1016/j.chemosphere.2023.140949

    Dennys Leyva, Muhammad Usman Tariq, Rudolf Jaffé, Fahad Saeed, and Francisco Fernandez-Lima. Environmental Science & Technology 2023 57 (6), 2672-2681. DOI: 10.1021/acs.est.2c04715 "

    Flood PJ, Loftus WF, Trexler JC (2023) Fishes in a seasonally pulsed wetland show spatiotemporal shifts in diet and trophic niche but not shifts in trophic position. Food Webs 34:e00265. https://doi.org/10.1016/j.fooweb.2022.e00265

    Gervasi, C. L., Karnauskas, M., Rios, A., Santos, R. O., James, W. R., Rezek, R. J., & Rehage, J. S. (2023). Rapid approach for assessing an unregulated fishery using a series of data-limited tools. Marine and Coastal Fisheries: Dynamics, Management, and Ecosystem Science, 15, e10270. https://doi.org/10.1002/mcf2.10270

    Hackerott, S., F. Virdis, P. J. Flood, D. G. Souto, W. Paez, J. M. Eirin-Lopez. (2023) Phenotypic plasticity is associated with epigenetic variation in two Caribbean Acropora corals. Molecular Ecology 32(17): 4814-4828

    Heather Stewart, Savanna Hearne, Casey Craig, Ryan P. Moyer, Erin McDevitt, Julie Mitchell, Loraé Simpson, Marbelys Garriga, Kara Radabaugh. 2023. Using mangrove monitoring to inform and guide restoration efforts.

    Ikechukwu S. Onwuka, Leonard J. Scinto, René M. Price, Assefa M. Melesse, Dynamics of particles and phosphorus in canals of the Lower Everglades, Florida, USA, Science of The Total Environment, Volume 902, 2023, 166508, ISSN 0048-9697, https://doi.org/10.1016/j.scitotenv.2023.166508.

    Jazmin Locke-Rodriguez, Tiffany Troxler, Michael C. Sukop, Leonard Scinto, Krish Jayachandran. Floating flowers: Screening cut-flower species for production and phytoremediation on floating treatment wetlands in South Florida, Environmental Advances, Volume 13, 2023, 100405, ISSN 2666-7657, https://doi.org/10.1016/j.envadv.2023.100405.

    Li X, Cui D, Ng B, Ogunbiyi OD, Guerra de Navarro M, Gardinali P, et al. Non-targeted analysis for the screening and semi-quantitative estimates of per-and polyfluoroalkyl substances in water samples from South Florida environments. J Hazard Mater 2023;452. https://doi.org/10.1016/j.jhazmat.2023.131224.

    Locke-Rodriguez, J., Troxler, T., Sukop, M., Scinto, L., and Jayachandran, K. 2023. Floating flowers: Screening cut-flower species for production and phytoremediation on floating treatment wetlands in South Florida. Environmental Advances, 13, 100405. ISSN 2666-7657

    Alsayegh, J. Fuentes, L. Bobadilla, and D. Shell, “Oblivious Markov Decision Processes: Planning and Policy Execution.” Accessed: Dec. 18, 2023. [Online]. Available: https://cse-robotics.engr.tamu.edu/dshell/papers/cdc23mdp.pdf

    Miguel Santos-Fernandez, Kevin Jeanne Dit Fouque, and Francisco Fernandez-Lima. Integration of Trapped Ion Mobility Spectrometry and Ultraviolet Photodissociation in a Quadrupolar Ion Trap Mass Spectrometer. Analytical Chemistry 2023 95 (22), 8417-8422. DOI: 10.1021/acs.analchem.3c01220

    Miller, S. A., Jeanne Dit Fouque, K., Hard, E. R., Balana, A. T., Kaplan, D., Voinov, V. G., Ridgeway, M. E., Park, M. A., Anderson, G. A., Pratt, M. R., & Fernandez-Lima, F. (2023). Top/Middle-Down Characterization of α‑Synuclein Glycoforms. Analytical Chemistry (Washington), 95(49), 18039–18045. https://doi.org/10.1021/acs.analchem.3c02405

    N.A. Castillo, W.R. James, R.O. Santos, R. Rezek, D. Cerveny, R.E. Boucek, A.J. Adams, T. Goldberg, L. Campbell, A.U. Perez, J.J. Schmitter-Soto, J.P. Lewis, J. Fick, T. Brodin, J.S. Rehage (2023). Understanding pharmaceutical exposure and the potential for effects in marine biota: A survey of bonefish (Albula vulpes) across the Caribbean Basin. Chemosphere, 140949, ISSN 0045-6535, https://doi.org/10.1016/j.chemosphere.2023.140949.

    Ogunbiyi, O. D., Ajiboye, T. O., Omotola, E. O., Oladoye, P. O., Olanrewaju, C. A., & Quinete, N. (2023). Analytical approaches for screening of per-and poly fluoroalkyl substances in food items: A review of recent advances and improvements. Environmental Pollution, 121705.

    Ogunbiyi, Olutobi, Massenat, Neumiah and Quinete, Natalia Soares. 2023. Dispersion and Stratification of Per-And Polyfluoroalkyl Substances (Pfas) in Surface and Deep-Water Profiles: A Case Study of the Biscayne Bay Area. Available at SSRN. http://dx.doi.org/10.2139/ssrn.4572299

    Perez, C.M., Gong, Z., Yoo, C. et al. Inhibitor of DNA Binding Protein 3 (ID3) and Nuclear Respiratory Factor 1 (NRF1) Mediated Transcriptional Gene Signatures are Associated with the Severity of Cerebral Amyloid Angiopathy. Mol Neurobiol (2023). https://doi.org/10.1007/s12035-023-03541-2

    Perez., C., M., Felty, Q., Yoo, C. et al. Inhibitor of DNA Binding Protein 3 (ID3) and Nuclear Respiratory Factor 1 (NRF1) Mediated Transcriptional Gene Signatures are Associated with the Severity of Cerebral Amyloid Angiopathy. Molecular Neurobiology. September 5th, 2023.

    Rodemann, J.R., James, W.R., Rehage, J.S., Baktoft, H., Costa, S.V., Ellis, R.D., Gonzalez, L., Corujo, R.S. Residency and fine-scale habitat use of juvenile Goliath Grouper (Epinephelus itajara) in a mangrove nursery. Bulletin of Marine Science, Volume 99, Number 2, 2023, pp. 111-118(8). DOI: https://doi.org/10.5343/bms.2022.0061

    Rodemann, J.R., James, W.R., Rehage, J.S., Baktoft, H., Costa, S.V., Ellis, R.D., Gonzalez, L., Santos, R.O., (2023) “Residency and fine-scale habitat use of juvenile goliath grouper (Epinephelus itajara) in a mangrove nursery.” Bulletin of Marine Science. https://doi.org/10.5343/bms.2022.0061

    Rojas, C. A.; Devesa, A.; Cabrera, H.; Reis, G. M.; Bobadilla, L.; Smith, R. N. (2023). Privacy-Preserving Multi-Agent Marine Data Collection via Differential Privacy. IEEE Oceans 2023 Gulf Coast Conference Online Proceedings.

    Rojas, C. A.; Padrao, P.V.; Fuentes, J.E.; Reis, G. M.; Albayrak, A. R.; Osmanoglu, B.; Bobadilla, L. (2023). Combining Multi-Satellite Remote and In-situ Sensing for Autonomous Underwater Vehicle Localization and Navigation. Available at SSRN 4521499

    Stormie B Collins, Heather D Bracken-Grissom, J Antonio Baeza, The complete mitochondrial genome of the pink shrimp Farfantepenaeus duorarum (Burkenroad, 1939) (Decapoda: Dendrobranchiata: Penaeidae), Journal of Crustacean Biology, Volume 42, Issue 1, March 2022, ruac007, https://doi.org/10.1093/jcbiol/ruac007

    Sturges et al., 2023 (in-revision) Seasonality drives green and brown energy pathways in food webs across an ecosystem gradient

    Timm, L, Tucker N, Rix A, LaBua S, Andrés Lopez J, Boswell K, Glass J. 2023. The untapped potential of seascape genomics in the North Pacific. Frontiers in Conservation Science. https://doi.org/10.3389/fcosc.2023.1249551.

    Troxell, Kassidy & Ceccopieri, Milena & Gardinali, Piero. (2023). Unraveling the chemical fingerprint of the Miami River sources: Insights from high-resolution mass spectrometry and nontarget analysis. Chemosphere. 349. 140863. 10.1016/j.chemosphere.2023.140863.

     Varela, C., Iporac, L.A., Senna, A., 2023. A new species of Quadrimaera Krapp-Schickel & Ruffo, 2000 (Amphipoda: Senticaudata: Maeridae) from the east coast of Florida, USA. Novitates Caribaea 29–39. https://doi.org/10.33800/nc.vi21.325

  • 2022 Publications

    Annunziato, Mark, et al. (2022) “An Integrated Systems-Level Model of the Toxicity of Brevetoxin Based on High-Resolution Magic-Angle Spinning Nuclear Magnetic Resonance (HRMAS NMR) Metabolic Profiling of Zebrafish Embryos.” The Science of the Total Environment, vol. 803, Elsevier B.V, pp. 149858–149858, https://doi.org/10.1016/j.scitotenv.2021.149858.

    Beal A. P., S. Hackerott, K. Feldheim, S. Gruber, J. M. Eirin-Lopez (2022). Age group DNA methylation differences in lemon sharks (Negaprion brevirostris): Implications for future age estimation tools. Ecology and Evolution 12: e9226

    Boucek, R.E., Rehage, J., Castillo, N.A., Dowskin, E., Larkin, M., Santos, R., Navarre, C., Adams, A. (2022 in review). Using recreational tournament data to construct a 52 year timeseries of the Florida Keys recreational Bonefish fishery – In Review

    Bradbury, M. (2022). Site prioritization and the reproduction of inequity in the restoration of Biscayne Bay. The Canadian Geographer/Le Géographe canadien. https://doi.org/10.1111/cag.12817

    Campbell, L.J., Castillo, N.A., Dunn, C.D., Perez, A., Schmitter-Soto, J.J., Mejri, S., Boucek, R. E., Santos Corujo, R., Adams, A.J., Rehage, J.S., Goldberg, T. L. (2022 in review). Viruses of Atlantic Bonefish (Albula vulpes) show geographic patterns consistent with population declines. – In Review.

    Campbell, L.J., Castillo, N.A., Shenker, J., Owens, L.A., Santos, R.O., Adams, A.J., Rehage, J.S., Denton, K.E., Goldberg, T.L. (2022). Bone appetit: DNA metabarcoding as a non-lethal alternative to morphological dietary assessment in Atlantic bonefish (Albula vulpes). Environmental Biology of Fishes.

    Collins, S. B., Bracken-Grissom, H. D., & Baeza, J. A. (2022). The complete mitochondrial genome of the pink shrimp Farfantepenaeus duorarum (Burkenroad, 1939) (Decapoda: Dendrobranchiata: Penaeidae). Journal of Crustacean Biology, 42 (1), ruac007.

    Cui, D., Abdullah, A. M., Peller, J. R., Mezyk, S. P., Mebel, A., & O’Shea, K. (2022). Effectiveness of Photocatalysis, Radiolysis, and Ultrasonic Irradiation in the Remediation of GenX: Computational Study of the Ultrasonically Induced Mineralization. Journal of Environmental Engineering, 148 (11). https://doi.org/10.1061/(asce)ee.1943-7870.0002066

    Esmaeilian A., and O'Shea K., (2022) “Application of dimensional analysis in sorption modeling of the styryl pyridinium cationic dyes on reusable iron based humic acid coated magnetic nanoparticles” Chemosphere 286:131699.

    Esmaeilian A., Dionysiou D., and O'Shea K., (2022) “Incorporating the simultaneous effect of initial concentration and sorbent dose into removal prediction model using glyphosate experimental data and theoretical analysis” Chemical Engineering Journal.

    Gervasi CL, Nelson JA, Swart PK, Santos RO, Rezek RJ, James WR, Jefferson AE, Drymon JM, Carroll J, Boucek RE, & JS Rehage (2022) Otolith stable isotope micro-sampling to discriminate poorly studied stocks: Crevalle Jack in the eastern Gulf of Mexico. Estuarine, Coastal and Shelf Science. https://doi.org/10.1016/j.ecss.2022.108130

    Gervasi, C. L., Massie, J. A., Rodemann, J.R., Trabelsi, S., Santos, R. O., & Rehage, J. S. (2022). Recreational Angler Contributions to Fisheries Management Are Varied and Valuable: Case Studies from South Florida. Fisheries, 47 (11), 469-477.

    Iporac, L.A.R., Hatt, D., Bally, N.K., Castro, A., Cardet, E., Mesidor, R., Olszak, S., Duran, A., Burkholder, D., and Collado-Vides, L. (2022).  Community-based monitoring reveals spatiotemporal variation of sargasso inundation levels and morphotype dominance across the Caribbean and South Florida. Aquatic Botany.

    James WR, Bautista V, Rezek RJ, Zink IC, Rehage JS, & RO Santos (2022) A review of the potential impacts of commercial inshore pink shrimp fisheries on recreational flats fisheries in Biscayne Bay, FL, USA. Environmental Biology of Fishes. https://doi.org/10.1007/s10641-022-01319-4

    James WR, Santos RO, Rodemann JR, Rezek RJ, Fratto ZW, Furman BT, Hall MO, Kelble CR, Rehage JS, & JA Nelson (in revision) Widespread seagrass die-off has no legacy effect on basal resource use of seagrass food webs in Florida Bay, USA.

    Jeanne Dit Fouque, Kevin, Samuel A. Miller, Khoa Pham, Natarajan V. Bhanu, Yarixa L. Cintron-Diaz, Dennys Leyva, Desmond Kaplan, et al. (2022) Top-‘Double-Down’ Mass Spectrometry of Histone H4 Proteoforms: Tandem Ultraviolet-Photon and Mobility/Mass-Selected Electron Capture Dissociations. Analytical chemistry 94, 44: 15377–15385.

    Lemos, L.S., Gantiva, L., Kaylor, C., Sanchez, A., Quinete, N. (2022) "American Oysters as Bioindicators of Emerging Organic Contaminants in Florida, United States." Science of the Total Environment, 835 (6), 155316. dx.doi.org/10.2139/ssrn.4048906

    Leyva, D.; Jaffé, R.; Courson, J.; Kominoski, J.; Tariq, U.; Saeed, F.; and Fernandez-Lima, F. (2022). Molecular level characterization of DOM along a freshwater-to-estuarine coastal gradient in the Florida Everglades. Aquat. Sci., 84, 63.

    Leyva, D., Tariq U., Saeed, F., Jaffé, R.; Fernandez-Lima, F. (2022) “Unsupervised Structural Classification of Dissolved Organic Matter Based on Fragmentation Pathways.” Environ. Sci. Technol., 56 (2), 1458-1468.

    Li, X., Fatowe, M., Cui, D., & Quinete, N. (2022). Assessment of per- and polyfluoroalkyl substances in Biscayne Bay surface waters and tap waters from South Florida. Science of the Total Environment, 806, 150393. https://doi.org/10.1016/j.scitotenv.2021.150393

     Massie JA, Santos, RO, Rezek, RJ, James, WR, Viadero, NM, Boucek, RE, Blewett DA, Trotter AA, Stevens PW, & JS Rehage (2022). Primed and cued: long-term acoustic telemetry links interannual and seasonal variations in freshwater flows to the spawning migrations of Common Snook in the Florida Everglades. Movement Ecology. https://doi.org/10.1186/s40462-022-00350-5

    Miller, Samuel A., Kevin Jeanne Dit Fouque, Mark E. Ridgeway, Melvin A. Park, and Francisco Fernandez-Lima (2022). Trapped Ion Mobility Spectrometry, Ultraviolet Photodissociation, and Time-of-Flight Mass Spectrometry for Gas-Phase Peptide Isobars/Isomers/Conformers Discrimination. Journal of the American Society for Mass Spectrometry 33, 7: 1267–1275.

    B. Ng, N. Quinete, P. Gardinali. Differential organic contaminant ionization source detection and identification in environmental waters by non-targeted analysis. Environ. Toxicol. Chem. 2022. In Press. doi.org/10.1002/etc.5268.

    Padrao, P., Dominguez, A., Bobadilla, L. and Smith, R. (2022.). Towards Learning Ocean Models for Long-term Navigation in Dynamic Environments. In: OCEANS 2022-Chennai. IEEE

    Padrao, P., Fuentes, J., Bobadilla, L. and Smith, R.N. (2022). Estimating spatio-temporal fields through reinforcement learning. Frontiers in Robotics and AI, 9. doi:10.3389/frobt.2022.878246.

    Perez C, Felty Q. Molecular basis of the association between transcription regulators nuclear respiratory factor 1 and inhibitor of DNA binding protein 3 and the development of microvascular lesions. Microvascular Research. 2022 Feb: 104337. DOI: 10.1016/j.mvr.2022.104337. PMID: 35143811.

    Perez, C., Felty, Q., Yoo, C.W., Roy, D., Deoraj, A. (2022). Molecular Contributions of NRF1 and ID3 to Vascular Toxicity in Cerebral Amyloid Angiopathy. Society of Toxicology 61st Annual Meeting. Toxicological Sciences: The Toxicologist. San Diego, California.

    Pezeshk, S. (2022) Bio-Tile: An Intelligent Hybrid-Infrastructure. In: Yuan P.F., Chai H., Yan C., Leach N. (eds) Proceedings of the 2021 Digital FUTURES. CDRF 2021. Springer, Singapore. https://doi.org/10.1007/978-981-16-5983-6_8

    Rezek RJ, James WR, Bautista V, Zink IC, Rehage JS, & RO Santos (2022). Temporal trends of Biscayne Bay pink shrimp fisheries catch and economic indicators. Environmental Biology of Fishes. https://doi.org/10.1007/s10641-022-01314-9

    Rodriguez-Casariego, Javier A., Ross Cunning, Andrew C. Baker, and Jose M. Eirin-Lopez (2022). Symbiont Shuffling Induces Differential DNA Methylation Responses to Thermal Stress in the Coral Montastraea Cavernosa. Molecular Ecology 31 (2): 588–602.

    Rojas, C., Padrao, P., Fuentes, J., Albayrak, A., Osmanoglu, B. and Bobadilla, L. (2022). Combining Remote and In-situ Sensing for Autonomous Underwater Vehicle Localization and Navigation. In: OCEANS 2022, Hampton Roads. IEEE, pp.1–7.

    Santos RO, James WR, Nelson JA, Rehage JS, Serafy J, Pittman SJ, & D Lirman (2022) Influence of seascape spatial pattern on the trophic niche of an omnivorous fish. Ecosphere https://doi.org/10.1002/ecs2.3944

    Troxell, K., Ng, B., Ley, I. and Gardinali, P. (2022), Detecting Water Constituents Unique to Septic Tanks as a Wastewater Source in the Environment by Non-target Analysis; South Florida’s Deering Estate Rehydration Project Case Study. Environ Toxicol Chem. Accepted Author Manuscript. https://doi.org/10.1002/etc.5309

    Zahilyn D. Roche Allred, Brianna L. Martinez, Abigail Green, Anthony Farias, Ana Tomlinson, Jeffrey Gonzalez, Aaron Rose, Alex Kararo, Kristin Parent, Rebecca Matz, Sonia Underwood, (2022) “Lessons Learned from the Implementation and Evaluation of Multidisciplinary Activities”, Journal of Chemical Education, under review.

  • 2021 Publications

    B. J. Place, E. M. Ulrich, J. K. Challis, A. Chao, B. Du, K. Favela, Y. Feng, C. M. Fisher, P. Gardinali, A. Hood, A. M. Knolhoff, A. D. McEachran, S. L. Nason, S. R. Newton, B. Ng, J. Nuñez, K. T. Peter, A. L. Phillips, N. Quinete, R. Renslow, J. R. Sobus, E. M. Sussman, B. Warth, S. Wickramasekara, A. J. Williams. An introduction to the benchmarking and publications for non-targeted analysis working group. Anal. Chem. 2021, 93 (49), 16289-16296.

    Balderas-Guzman, C., Wang, R., Muellerklein, O., Smith, M.A., & Eger, C.G. (2021). Comparing stormwater quality and watershed typologies across the United States: a machine learning approach. Water Research. (In Review)

    Beal, A., Hackerott, S., Franks, B., Gruber, S. H., Feldheim, K., & Eirin-Lopez, J. M. (2021) Epigenetic responses in juvenile Lemon sharks (Negaprion brevirostris) during a coastal dredging episode in Bimini, Bahamas. Ecological Indicators, 127, 107793. https://doi.org/10.1016/j.ecolind.2021.107793

    Cerveny, D., Fick, J., Klaminder, J., McCallum, E.S., Bertram, M.G., Castillo, N.A., Brodin, T. (2021) “Water temperature affects the biotransformation and accumulation of a psychoactive pharmaceutical and its metabolite in aquatic organisms.” Environment International, 155, 106705. https://doi.org/10.1016/j.envint.2021.106705

    Gaiser, E.E., J.S. Kominoski, D.M. McKnight, C.A. Bahlai, C. Cheng, S. Record, W. Wollheim, K.R. Christianson, M.R. Downs, P.A. Hawman, S.J. Holbrook, A. Kumar, D.R. Mishra, N.P. Molotch, R.B. Primack, A. Rassweiler, R.J. Schmitt, L. Sutter. Long-term ecological research and the COVID-19 anthropause: A window to understanding social-ecological disturbance. Ecosphere (in press) 

    García Barcia L, Pinzone M, Lepoint G, Pau C, Das K, Kiszka JJ. Factors affecting mercury concentrations in two oceanic cephalopods of commercial interest from the southern Caribbean. Mar Pollut Bull. 2021 Jul;168:112408. doi: 10.1016/j.marpolbul.2021.112408. Epub 2021 May 6. PMID: 33965692. 

    Gervasi CL, Santos RO, Rezek RJ, James WR, Boucek RE, Bradshaw C, Kavanagh C, Osborne J, & Rehage JS (2021) Bottom-up conservation: Using translational ecology to inform conservation priorities for a recreational fishery. Canadian Journal of Fisheries and Aquatic Sciences https://doi.org/10.1139/cjfas-2021-0024 

    Hackerott, S., H. A. Martell, J. M. Eirin-Lopez. (2021) Coral environmental memory: Causes, mechanisms, and consequences for future reefs. Trends in Ecology and Evolution 36: 1011-1023 

    James WR, Santos RO, Rehage JS, Doerr JC, & JA Nelson (2021) E-scape: consumer specific landscapes of energetic resources derived from stable isotope analysis and remote sensing. Journal of Animal Ecology https://doi.org/10.1111/1365-2656.13637 

    Juliet M. Wong and Jose M. Eirin-Lopez (2021) Evolution of methyltransferase like (METTL) proteins in Metazoa: A complex gene family involved in epitranscriptomic regulation and other epigenetic processes. Molecular Biology and Evolution msab267. https://doi.org/10.1093/molbev/msab267 

    Kimball ME, Connolly RM, Alford SB, Colombano DD, James WR, Kenworth MD, Norris GS, Ollerhead J, Ramsden S, Rehage JS, Sparks EL, Waltham NJ, Worthington TA, & Taylor MD (2021) Novel applications of technology for advancing tidal marsh ecology. Estuaries & Coasts doi: 10.1007/s12237-021-00939-w 

    Li, X., Fatowe, M., Cui, D., Quinete, N. (2021) "Assessment of per- and polyfluoroalkyl substances in Biscayne Bay surface waters and tap waters from South Florida." Science of the Total Environment, 806, 1, 150393. https://doi.org/10.1016/j.scitotenv.2021.150393

    Lugo Charriez, K., Soledade Lemos, L., Carrazana, Y. et al. Application of an Improved Chloroform-Free Lipid Extraction Method to Staghorn Coral (Acropora cervicornis) Lipidomics Assessments. Bull Environ Contam Toxicol 107, 92–99 (2021). https://doi.org/10.1007/s00128-020-03078-3

    Meeder, J.F., Parkinson, R.W., Ogurcak, D. et al. (2021) "Changes in Sediment Organic Carbon Accumulation under Conditions of Historical Sea-Level Rise, Southeast Saline Everglades, Florida, USA," Wetlands. https://doi.org/10.1007/s13157-021-01440-7

    Moncada, A.M., Melesse, A.M., Vithanage, J., Price, R.M. (2021) "Long-Term Assessment of Surface Water Quality in a Highly Managed Estuary Basin." International Journal of Environmental Research and Public Health, 18, 9417. https://doi.org/10.3390/ijerph18179417 

    Brian Ng, Natalia Quinete, Stephanie Maldonado, Kathleen Lugo, Julian Purrinos, Henry Briceño, Piero Gardinali. (2021) "Understanding the occurrence and distribution of emerging pollutants and endocrine disruptors in sensitive coastal South Florida Ecosystems." Science of the Total Environment 757. https://doi.org/10.1016/j.scitotenv.2020.143720

    Olanrewaju, C. A., Ramirez, C. E., & Fernandez-Lima, F. (2021). Characterization of Deasphalted Crude Oils Using Gas Chromatography–Atmospheric Pressure Laser Ionization–Trapped Ion Mobility Spectrometry–Time-of-Flight Mass Spectrometry. Energy & Fuels, 35(17), 13722-13730. 

    Olanrewaju, C. A., Ramirez, C. E., & Fernandez-Lima, F. (2021). Comprehensive Screening of Polycyclic Aromatic Hydrocarbons and Similar Compounds Using GC–APLI–TIMS–TOFMS/GC–EI–MS. Analytical Chemistry, 93(15), 6080-6087.

    Onwuka, I.S., Scinto, L.J., Mahdavi Mazdeh, A. (2021) "Comparative Use of Hydrologic Indicators to Determine the Effects of Flow Regimes onWater Quality in Three Channels across Southern Florida, USA." Water 2021, 13, 2184. https://doi.org/10.3390/w13162184

    Peña, F., Nardi, F., Melesse, A., Obeysekera, J., Castelli, F., Price, R. M., Crowl, T., and Gonzalez-Ramirez, N.: Compound flood modelling framework for rainfall-groundwater interactions, Nat. Hazards Earth Syst. Sci. Discuss. [preprint], https://doi.org/10.5194/nhess-2021-259, in review, 2021. 

    Francisco Peña, Fernando Nardi, Assefa Melesse, Jayantha Obeysekera. (2021) "Assessing geomorphic floodplain models for large scale coarse resolution 2D flood modelling in data scarce regions." Geomorphology 389. https://doi.org/10.1016/j.geomorph.2021.107841

    Pittman SJ, Yates KL, Bouchet PJ,… James WR… (34 additional authors) (2021) Seascape ecology: Identifying research priorities for an emerging ocean sustainability science. Marine Ecology Progress Series https://doi.org/10.3354/meps13661 

    Presa-Reyes, Maria, and Shu-Ching Chen. "Weakly-Supervised Damaged Building Localization and Assessment with Noise Regularization." In 2021 IEEE 4th International Conference on Multimedia Information Processing and Retrieval (MIPR), pp. 8-14. IEEE, 2021. 

    Presa-Reyes, Maria, Yudong Tao, Shu-Ching Chen, and Mei-Ling Shyu. (2021) "Deep Learning with Weak Supervision for Disaster Scene Description in Low-Altitude Imagery." IEEE Transactions on Geoscience and Remote Sensing 

    Rodemann JR, James WR, Santos RO, Furman BT, Fratto ZW, Bautista V, Hernandez JL, Viadero NM, Linenfelser JO, Lacy LA, Hall MO, Kelble CR, Kavanaugh C, & JS Rehage (2021) Impact of extreme disturbances on suspended sediment in Western Florida Bay: Implications for seagrass resilience. Frontiers in Marine Science https://doi.org/10.3389/fmars.2021.633240 

    Rodriguez-Casariego J. A., R. Cunning, A. C. Baker, J. M. Eirin-Lopez (2021) Symbiont shuffling induces differential DNA methylation responses to thermal stress in the coral Montastraea cavernosa. Molecular Ecology, 00, 1-15 doi:10.1111/mec.16246 

    Russell Fielding, Jeremy J. Kiszka, Catherine Macdonald, Meaghan A. McCormack, Jessica Dutton, Alison D. Ollivierre, James A. Arnett, Molly Elkins, Niko A. Darby, Hannah-Marie Garcia, Suzanne Skinner, Haley Tucker & Vincent Reid (2021). "Demographic and geographic patterns of cetacean-based food product consumption and potential mercury exposure within a Caribbean whaling community." Human and Ecological Risk Assessment: An International Journal, 27:6, 1671-1695, DOI: 10.1080/10807039.2020.1870865 

    Smith, M. A., Kominoski, J. S., Gaiser, E. E., Price, R. M., & Troxler, T. G. (2021). Stormwater runoff and tidal flooding transform dissolved organic matter composition and increase bioavailability in urban coastal ecosystems. Journal of Geophysical Research: Biogeosciences, 126(7), e2020JG006146. 

    Tariq U., Leyva, D., Fernandez-Lima, F., Saeed, F. (2021) “Graph Theoretic Approach for the Analysis of Comprehensive Mass-Spectrometry (MS/MS) Data of Dissolved Organic Matter.” IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 3742-3746. 

    Van Dam, B., Polsenaere, P., Barreras-Apodaca, A., Lopes, C., Sanchez-Mejia, Z., Tokoro, T., et al. (2021). Global trends in air-water CO2 exchange over seagrass meadows revealed by atmospheric Eddy Covariance. Global Biogeochemical Cycles, 35, e2020GB006848. https://doi.org/10.1029/2020GB006848 

    Yando, E.S., T.M. Sloey, F. Dahdouh-Guebas, K. Rogers, G.M.O. Abuchahla, S. Cannicci, S.W.J. Canty, T.C. Jennerjahn, D.E. Ogurcak, J.B. Adams, R.M. Connolly, K. Diele, S.Y. Lee, J.K. Rowntree, S. Sharma, K.C. Cavanaugh, N. Cormier, I.C. Feller, S. Fratini, X. Ouyang, A.K.S. Wee, and D.A. Friess (2021). "Conceptualizing ecosystem degradation using mangrove forests as a model system." Biological Conservation 263, 109355. doi.org/10.1016/j.biocon.2021.109355

  • 2020 Publications

    Burton, L., K. Jayachandran, S. Bhansali, “The real-time revolution for in-situ soil nutrient sensing: A review,” Journal of the Electrochemical Society, January 2020 - Under Review

    Burton, L., V. Kamat, K. Jayachandran, S. Bhansali, “SensePod for real-time evaluation of plant phenotypic characteristics,” Journal of Biosensors and Bioelectronics, January 2020 - Under Review

    Castellanos, A., M. G. Hernandez, M. Tomic-Canic, I. Jozic and F. Fernandez-Lima. Multimodal, in Situ Imaging of Ex Vivo Human Skin Reveals Decrease of Cholesterol Sulfate in the Neoepithelium during Acute Wound Healing. Analytical Chemistry, 2020, 92, 1386-1394. DOI: 10.1021/acs.analchem.9b04542

    Charriez KL, Carrazana Y, Lemos LS, Hauser-Davis RA, Rodríguez-Casariego J, Eirin-Lopez JM, Quinete NS. Development of an improved chloroform-free lipid extraction method applied to staghorn Acropora cervicornis corals lipid determinations. Submitted to Bulletin of Environmental Contamination and Toxicology. 28 Aug 2020.

    Cui, D., Li, X., & Quinete, N. (2020). Occurrence, fate, sources and toxicity of PFAS: What we know so far in Florida and major gaps. Trends in Analytical Chemistry, 130, 115976. https://doi.org/10.1016/j.trac.2020.115976

    Durán, A., Flood P., Barton, M., Mercado-Molina, A.E., Trexler, J.C. Invasion impacts on function and services of aquatic ecosystems. Hydrobiologia (Under Review)

    Fielding, R., Kiszka, J., MacDonald, C., MacCornack, M.A., Dutton, J., Ollivierre, A.D., Arnett, J., Elkins, M., Darby, N.A., Garcia, H.-M., Skinner, S., Tucker, H. & Reid, V. "Demographic and geographic patterns of cetacean-based food product consumption and potential mercury exposure within a Caribbean whaling community". Human and Ecological Risk Assessment.

    Garcia-Barcia, L., Pinzone, M., Lepoint, G., Pau, C., Das, K. & Kiszka, J. "Mercury concentrations in relation to trophic level and body length in two oceanic cephalopods of commercial interest from the southern Caribbean". Marine Pollution Bulletin.

    Gaiser, E., Kominoski, J., McKnight, D., Bahlai, C., Cheng, C., Record, S., Wollheim, W., Christianson, K., Downs, M., Harms, T., Hawman, P., Holbrook, S., Kumar, A., Mishra, D., Molotch, N., Primack, R., Rassweiler, A., Schmitt, R., Sutter, L. "Long-term ecological research and the COVID-19 anthropause: A window to understanding social-ecological disturbance". Ecosphere. submitted.

    Henderson A., Ng  B., Landeweer S., Quinete N., Gardinali P."Assessment of sucralose, caffeine and acetaminophen as anthropogenic tracers in aquatic systems across Florida." B. Environ. Contam. Tox. 2020, 1-7.

    Howard, J.L., Lopes, C.C., Wilson, S.S., McGee-Absten, V., Carrión, C.I., Fourqurean, J.W. Decomposition Rates of Surficial and Buried Organic Matter and the Lability of Soil Carbon Stocks Across a Large Tropical Seagrass Landscape. Estuaries and Coasts (2020). https://doi.org/10.1007/s12237-020-00817-x

    Iporac LAR. 2020. Are Asians and Asian-Americans Excluded in Diversity, Equity, and Inclusion Initiatives? Limnology and Oceanography Bulletin, doi: 10.1002/lob.10408

    Leyva, D., Jaffe, R., Fernandez-Lima, F., Structural Characterization of Dissolved Organic Matter at the Chemical Formula Level Using TIMS-FT-ICR MS/MS. Analytical Chemistry 2020, 92 (17), 11960-11966.

    Lugo Charriez K.,  Lemos L.S., Carrazana Y.,  Rodriguez-Casariego J.A,  Eirin-Lopez J.M, Hauser-Davis R.A.,Gardinali P., Soares Quinete N., (2020) "Application of an Improved Chloroform-Free Lipid Extraction Method to staghorn coral (Acropora cervicornis) Lipidomics Assessment". Bulletin of Environmental Contamination and Toxicology  (submitted)

    McCormack, M.A., Fielding, R., Kiszka, J., Paz, V., Jackson, B.P., Bergfelt, D.R. & Dutton, J., 2020. "Mercury and selenium concentrations, and selenium: mercury molar ratios, in small cetaceans taken off St. Vincent, West Indies". Environmental Research, 181: 108908 

    Meeder, J.M., R.W. Parkinson, D. E. Ogurcak, M.S. Ross, J. Kominoski, and S. Castaneda.  Sediment accumulation and OC storage under conditions of Holocene sea-level rise, Southeast Saline Everglades, Florida, U.S.A. Wetlands. Submitted.

    Mekonnen, Y., L. Burton, A. Sarwat, S. Bhansali, “Sensors, IoT, Smart Agriculture and Future of Smart City”, Submitted to Journal of Electrochemical Society, 2020 (Under Review)

    Mekonnen, Y., S. Namduri, L. Burton, A. Sarwat, S. Bhanslai, “Machine Learning Techniques in Wireless Sensor Network based Precision Agriculture”, Journal of Electrochemical Society, 2020 (In press)

    Namuduri, S., B.N. Narayanan, V.S.P. Davuluru, L. Burton, S. Bhansali, “Deep Learning Methods for Sensor based Predictive Maintenance and Future Perspectives for Electrochemical Sensors”, Journal of Electrochemical Society, 2020 (In press)

    Ng, B., Quinete, N., & Gardinali, P. R. (2020). Assessing accuracy, precision and selectivity using quality controls for non-targeted analysis. Science of The Total Environment, 136568 (In press)

    Ng B., Quinete N., Maldonado S., Lugo K., Purrinos J., Briceño H., Gardinali P. "Understanding the occurrence and distribution of emerging pollutants and endocrine disruptors in sensitive South Florida Ecosystems." In Press. Sci. Total Environ. 2020,

    Olanrewaju C.A., Ramirez, C. E., & Fernandez-Lima, F. (2020) "Comprehensive Screening of Polycyclic Aromatic Hydrocarbons and similar compounds using GC-APLI-TIMS-TOFMS/GC-EI-MS". (submitted). Anal. Chem.

    Paduani, M. (2020). Microplastics as novel sedimentary particles in coastal wetlands: A review. Marine Pollution Bulletin, 161, 111739. doi:10.1016/j.marpolbul.2020.111739.

    Perez C.M., Felty Q., Yoo C." Novel ID3 Regulatory Gene Networks Contributing to Brain Vascular Disease." Toxicological Sciences 174(1); 84, March 2020.

    Peña, F.; Nardi, F.; Melesse, A.; Obeysekera, J.; Assessing geomorphic floodplain models for large scale coarse resolution 2D flood modelling in data scarce regions. Geomorphology 2020 (Under review)

    Peña, F.; Nardi, F. Floodplain Terrain Analysis for Coarse Resolution 2D Flood Modeling. Hydrology 2018, 5(4), 52; https://doi.org/10.3390/hydrology5040052

    Pierce J.L.,  Lauretta M.V., Rezek R.J., Rehage J.S., 2020. "Survival of Florida Largemouth Bass in a coastal refuge habitat across years of varying drying severity". Transactions of the American Fisheries Society. 10.1002/tafs.10274

    Presa-Reyes M., Bogosian B., Schonhoff B., Jerauld C., Moreyra C., Gardinali P., Chen S.C.,"A Water Quality Research Platform for the Near-real-time Buoy Sensor Data," The 21st IEEE International Conference on Information Reuse and Integration for Data Science (IEEE IRI 2020), Tuscany Hotel, Las Vegas, Nevada, USA, pp. 287-294, August 11-13, 2020.

    Presa-Reyes M., Chen S.C, "Assessing Building Damage by Learning the Deep Feature Correspondence of Before and After Aerial Images," IEEE 3rd International Conference on Multimedia Information Processing and Retrieval, Shenzhen, Guangdong, China, pp. 43-48, August 6-8, 2020.

    Quinete NS, Hauser-Davis RA, Lemos LS, Moura JF, Siciliano S, Gardinali PR. Occurrence and tissue distribution of organochlorinated compounds and polycyclic aromatic hydrocarbons in Magellanic penguins (Spheniscus magellanicus) from the Southeastern coast of Brazil. Science of the Total Environment 749:141473.

    Regier, P., Larsen, L., Cawley, K., Jaffé, R., Linking hydrology and dissolved organic matter characteristics in a subtropical wetland: a long-term study of the Florida Everglades. Global Biogeochemical Cycles (in press). DOI: 10.1029/2020GB006648.

    Rezek, Ryan J., Jordan A. Massie, James A. Nelson, Rolando O. Santos, Natasha M. Viadero, Ross E. Boucek, and Jennifer S. Rehage. In press. Individual consumer movement mediates food web coupling across a coastal ecosystem. Ecosphere.

    Rodríguez-Casariego, Javier A., Mercado-Molina Alex E., Garcia-Souto Daniel, Ortiz-Rivera Ivanna M., Lopes Christian, Baums Iliana B., Sabat Alberto M., Eirin-Lopez Jose M. Genome-Wide DNA Methylation Analysis Reveals a Conserved Epigenetic Response to Seasonal Environmental Variation in the Staghorn Coral Acropora cervicornis. Frontiers in Marine Science, 2020, 7, 822. DOI: 10.3389/fmars.2020.560424  

    Smith, M.A.,  Kominoski, J.S., Gaiser, E.E., Price, R.M., & Troxler, T.G. (2020). Stormwater runoff and tidal flooding transform dissolved organic matter composition and increase bioavailability in urban coastal ecosystems. Journal of Geophysical Research: Biogeosciences. In Review.

    Strickland, B.A. et al 2020. Variation in movement behavior of alligators in response to a major hurricane. Journal Of Animal Biotelemetry (Under Review)

    Van Dam, B.R., Lopes, C.C., Polsenaere, P., Barreras-Apodaca A., Sanchez-Mejia Z.M., Tokoro T., Kuwae T., Gutierrez-Loza L. Rutgersson A. (2020) "Global trends in air-water CO2 exchange over seagrass meadows revealed by atmospheric Eddy Covariance".Earth and Space Science. https://doi.org/10.1002/essoar.10504484.1

    Van Dam, B.R., Lopes, C.C., Polsenaere, P., Price, R.M., Rutgersson, A. and Fourqurean, J.W. (2020), Water temperature control on CO2 flux and evaporation over a subtropical seagrass meadow revealed by atmospheric eddy covariance. Limnol Oceanogr. https://doi.org/10.1002/lno.11620

    Zeller, M. A., Van Dam, B. R., Lopes, C., & Kominoski, J. S. (2020). Carbonate-associated organic matter is a putative FDOM source in a subtropical seagrass meadow. Frontiers in Marine Science, 7, 947.

  • 2019 Publications

    Abiy A.Z., Melesse A.M., Abtew W. "Teleconnection of Regional Drought to ENSO, PDO, and AMO: Southern Florida and the Everglades". Atmosphere (2019), 10, 295

    Abiy A.Z., Melesse A.M., Abtew W., Whitman D. (2019). "Rainfall trend and variability in Southeast Florida: Implications for freshwater availability in the Everglades." PLoS ONE. 14 (2).

    Supplementary Data 

    Beal A.P., Kiszka J.J., Wells R.S. and Eirin-Lopez J.M. (2019) "The Bottlenose Dolphin Epigenetic Aging Tool (BEAT): A Molecular Age Estimation Tool for Small Cetaceans". Front. Mar. Sci. 6:561.

    Raw Data 

    Castellanos A., Ramirez C., Michalkova V., Nouzova M., Noriega F., Fernandez-Lima F. (2019). "Three Dimensional Secondary Ion Mass Spectrometry Imaging (3D-SIMS) of Aedes aegypti ovarian follicles". Journal of Analytical Atomic Spectrometry.

    Supplementary Data 

    Eggenberger C.W., Santos R.O., Frankovich T.A., James W.R., Madden C.J., Nelson J.A., Rehage J.S.(2019) "Coupling telemetry and stable isotope techniques to unravel movement: Snook habitat use across variable nutrient environments". Fisheries Research.

    Erin-Lopez J.M., Putnam H.M. "Annual Review of Marine Science, Marine Environmental Epigenetics". Annu. Rev. Mar. Sci. 2019. 11:7.1–7.34.

    Gesesse, A.A. Melesse, AM., Abera. F. Abiy. AZ. 2019. Modeling Hydrological Responses to Land Use Dynamics, Choke, Ethiopia, Water Conservation Science and Engineering, DOI: 10.1007/s41101-019-00076-3

    Gessesse, A.A., Assefa M. Melesse & Anteneh Z. Abiy (2019) Land use dynamics and base and peak flow responses in the Choke mountain range, Upper Blue Nile Basin, Ethiopia, International Journal of River Basin Management, DOI: 10.1080/15715124.2019.1672700

    Leyva D., Valadares L., Porter J., Wolff J., Jaffè R., Fernandez-Lima F. (2019). "Understanding the Structural Complexity of Dissolved Organic Matter: isomeric diversity." Faraday Discussions.

    Supplementary Data

    Regier P., Briceño H., Boyer J.N. (2019) "Analyzing and comparing complex environmental time series using a cumulative sums approach". MethodsX. Vol. 6, pg 779-787.

    Moncada A. (2019) Theme 4: "What Does Diversity Require of Us?". Fisheries, 44: 373-374.

    Suarez-Ulloa V., Rivera-Casas C., Michel M., Eirin-Lopez JM. "Seasonal DNA methylation variation in the flat tree oyster Isognomon Alatus from a mangrove ecosystem in north Biscayne Bay, Florida" Journal of Shellfish Research, Vol. 38, No. 1, 1–10, 2019.

    Torres A., Reis G.,  Absten J., Bricen H.O.,  Bobadilla L., Smith R.N. (2019). Correlating Water Quality and Profile Data in the Florida Keys. OCEANS: Conference & Exposition, Seattle 2019. (ACCEPTED)

    Van Dam, B. R., Lopes, C., Osburn, C. L., and Fourqurean, J. W.: Net heterotrophy and carbonate dissolution in two subtropical seagrass meadows, Biogeosciences, 16, 4411–4428, https://doi.org/10.5194/bg-16-4411-2019, 2019.

    Yanez, Tiffany. The Effects of Copper Exposure on Fish Locomotory and Predator-Prey Interactions. (2019). Florida International University.

  • 2018 Publications

    Banisakher D., Presa-Reyes M.E., Eisenberg J.D., Allen J., Finlayson M.A., Price R., Chen S.C. " Ontology-Based Supervised Concept Learning for the Biogeochemical Literature," 2018 IEEE International Conference on Information Reuse and Integration (IRI), Salt Lake City, UT, 2018, pp. 402-410.


    Beal A., Rodriguez-Casariego J.A., Rivera-Casas C., Suarez-Ulloa V., Eirin-Lopez J.M. #71 " Environmental Epigenomics and Its Applications in Marine Organisms".

     Benigni, P., Porter, J., Ridgeway, M.E., Park, M.A., Fernandez-Lima F. “ Increasing Analytical Separation and Duty Cycle with Nonlinear Analytical Mobility Scan Functions in TIMS-FT-ICR MS” Anal. Chem., 2018, 90 (4), pp 2446–2450.

    Supplementary Data

    Joshua Eisenberg. Automatic Extraction of Narrative Structure from Long Form Text. (2018). Florida International University.

    Hernández-Delgado E.A., Mercado-Molina A.E., Suleimán-Ramos S.E., and Lucking, M.A. (March 28th 2018). "Multi-disciplinary Lessons Learned from Low-Tech Coral Farming and Reef Rehabilitation: II. Coral Demography and Social-Ecological Benefits, Corals in a Changing World Carmenza Duque", IntechOpen.

    Perez, Christian M., M. Doke, C. Yoo, and Q. Felty (2018). "Molecular determinants of brain vascular disorders from exposure to polychlorinated biphenyls." The Toxicologist: Supplement to Toxicological Sciences. 162 (1), Abstract no. 2127. ISSN: 1096-6080

    Rodriguez‐Casariego J.A., Ladd M.C., Shantz A.A., Lopes C., Cheema M.S., Kim B., Roberts S.B., Fourqurean JW, Ausio J, Burkepile DE, Erin-Lopez JM." Coral epigenetic responses to nutrient stress: Histone H2A.X phosphorylation dynamics and DNA methylation in the staghorn coral Acropora cervicornis " . Ecol Evol. 2018; 00:1–15.

    Supplementary Data                                              Raw Data 

    Smith, Abraham Jeffrey. Development and Application of Aquatic Toxicology Studies for the Assessment of Impacts Due to Chemical Stressors Using Non-Standard Indigenous Organisms. (2018). Florida International University.

    Tose L.V., Benigni P., Leyva D., Sundberg A., Ramírez C.E., Ridgeway M.E. (2018). Coupling trapped ion mobility spectrometry to mass spectrometry: trapped ion mobility spectrometry–time-of-flight mass spectrometry versus trapped ion mobility spectrometry–Fourier transform ion cyclotron resonance mass spectrometry. Rapid Communications in Mass Spectrometry. 32 (15), 1287.

  • 2017 Publications

    Benigni, P., Marin, R. Sandoval, K., Gardinali, P., Fernandez-Lima, F., "Chemical Analysis of Water-accommodated Fractions of Crude Oil Spills Using TIMS-FT-ICR MS" Journal of Visualized Experiments (JOVE) 2017 , Issue 121, e55325.

    Benigni, P., Sandoval, K., Thompson, C.J., Ridgeway, M.E., Park, M.A., Gardinali, P., Fernandez-Lima, F., "Analysis of Photoirradiated Water Accommodated Fractions of Crude Oils Using Tandem TIMS and FT-ICR MS" Environmental Science & Technology 2017, Vol. 51 (11), pp 5978-5988.

    Supplementary Data

    Eisenberg, J.D., Banisakher, D., Presa, M., Unthank, K., Finlayson, M., Price, R., & Chen, S.C., "Toward Semantic Search for the Biogeochemical Literature" IEEE International Conference on Information Reuse and Integration (IRI) 2017, pp 517-525. 

    Gonzalez-Raymat, H., Liu, G.L., Liriano, C., Li, Y.B., Yin, Y.G., Shi, J.B., Jiang, G.B., Cai, Y., "Elemental mercury: Its unique properties affect its behavior and fate in the environment" Environmental Pollution 2017, Vol. 229, pp 69-86.

    Gonzalez-Romero, R., Suarez-Ulloa, V., Rodriguez-Casariego, J., Garcia-Souto, D., Diaz, G.,Smith, A., Pasantes, J.J., Rand, G., Eirin-Lopez, J.M., "Effects of Florida Red Tides on Histone variant expression and DNA methylation in the Eastern oyster Crassostrea virginica" Aquatic Toxicology 2017, Vol. 186, pp 196–204.

    Pouyanfar, S., and Chen, S.C. "T-LRA: Trend-based Learning Rate Annealing for Deep Neural Networks" IEEE Third International Conference on Multimedia Big Data 2017, pp 50-57.

    Prego-Faraldo, M.V., Vieira, L.R., Eirin-Lopez, J.M., Mendez, J., Guilhermino, L., "Transcriptional and biochemical analysis of antioxidant enzymes in the mussel Mytilus galloprovincialis during experimental exposures to the toxic dinoflagellate Prorocentrum lima" Marine Environmental Research 2017, Vol. 129, pp 304-315.

    Regier, P. “Linking Organic Matter Dynamics to Management, Restoration, and Climate in the Florida Everglades” (2017) FIU Electronic Theses and Dissertations.3385.

    Rivera-Casas, C., Gonzalez-Romero, R., Garduño, R.A., Cheema, M.S., Ausio, J., Eirin-Lopez, J.M., "Molecular and Biochemical Methods Useful for the Epigenetic Characterization of Chromatin-Associated Proteins in Bivalve Molluscs" Frontiers in Physiology2017, Vol. 8 (490).

    Tian, H.M., and Chen, S.C. "MCA-NN: Multiple Correspondence Analysis based Neural Network for Disaster Information Detection" IEEE Third International Conference on Multimedia Big Data 2017, pp 268-275.

  • 2016 Publications

    Flower, H., Rains, M., Lewis, D., Zhang, J., Price, R., "Saltwater intrusion as potential driver of phosphorus release from limestone bedrock in a coastal aquifer" Estuarine, Coastal and Shelf Science 2016, Vol. 184, pp 166-176.

    Pouyanfar, S., and Chen, S.C., "Semantic Concept Detection Using Weighted Discretization Multiple Correspondence Analysis for Disaster Information Management" IEEE 17th International Conference on Information Reuse and Integration (IRI) 2016, pp 556-564.

    Pouyanfar, S. and Chen S.C., "Semantic Event Detection Using Ensemble Deep Learning" IEEE International Symposium on Multimedia (ISM) 2016, San Jose, CA. pp 203-208.

    Sadiq, S., Yan, Y., Shyu, M.L., Chen, S.C., & Ishwaran, H. "Enhancing Multimedia Imbalanced Concept Detection Using VIMP in Random Forests" Proceedings of the IEEE International Conference on Information Reuse and Integration 2016, pp 601–608.

    Yan, Y., Zhu, Q., Shyu, M. L., & Chen, S.C. "A classifier ensemble framework for multimedia big data classification" IEEE 17th International Conference on Information Reuse and Integration (IRI) 2016, pp 615-622.

Conference & Meeting Presentations

Facilities & Equipment

We provide computer stations, labs and workspaces on both the Modesto Maidique and Biscayne Bay Campuses at FIU, which are available to all affiliated students, postdocs, faculty and staff.

We also operate the CAChE Nutrient Analysis Lab, which represents three distinct services; first, it serves as a NELAC-accredited nutrient analysis laboratory to directly support research; second, it contains a dedicated student area for education and training related to traditional water quality analyses; and finally, it provides a space where students and faculty can work to improve or innovate technologies, and develop alternative or novel techniques.