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Products & Resources

The CREST Center for Aquatic Chemistry and Environment promotes interdisciplinary collaboration within FIU and beyond, to address the local and regional issues of environmental contamination. Over the course of this project, CREST CAChE will provide various tools to aid both internal and external partners in this collaborative work.

The Products & Resources page will serve as a portal to the Center’s products and outcomes, including information from the original CREST CAChE 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 

  • 2019

    Erin-Lopez JM., Putnam HM. "Annual Review of Marine Science, Marine Environmental Epigenetics". Annu. Rev. Mar. Sci. 2019. 11:7.1–7.34. https://www.annualreviews.org/doi/abs/10.1146/annurev-marine-010318-095114


    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. center-for-aquatic-chemistry-and-environment/pollution-impacts-and-seasonal-epigenetic-modifications-in-North-Biscayne-Bay


    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. DOI: 10.1039/C8JA00425K

    Supplementary Data             


    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),  DOI:10.1371/journal.pone.0212008.

    Supplementary Data             


    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. DOI:10.1039/C8FD00221E  

    Supplementary Data             


    Angelica Moncada (2019). "Cutting Through the Socioeconomic Barrier to Increase Participation in Science." Opinion article in a special issue on underrepresented minorities in science, Fisheries Magazine.


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


    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.  https://doi.org/10.1016/j.mex.2019.03.014

    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.  https://doi.org/10.1016/j.fishres.2019.04.008


    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.  https://doi.org/10.3390/atmos10060295


    Moncada A. (2019) Theme 4: "What Does Diversity Require of Us?". Fisheries, 44: 373-374. DOI:10.1002/fsh.10312


    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. DOI:10.3389/fmars.2019.00561

    Supplementary Data             Raw Data

  • 2018

    Hernández-Delgado EA,  Mercado-Molina AE, Suleimán-Ramos SE, and Lucking MA. (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, DOI: null. Available from: https://www.intechopen.com/books/corals-in-a-changing-world/multi-disciplinary-lessons-learned-from-low-tech-coral-farming-and-reef-rehabilitation-ii-coral-demo


    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. DOI: 10.1021/acs.analchem.7b04053

    Supplementary Data


    Beal A, Rodriguez-Casariego JA, Rivera-Casas C, Suarez-Ulloa V, Eirin-Lopez JM. #71 "Environmental Epigenomics and Its Applications in Marine Organisms". DOI:10.1007/13836_2018_28. 


    Rodriguez‐Casariego JA, Ladd MC, Shantz AA, Lopes C, Cheema MS, Kim B, Roberts SB, 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 Evol2018;00:1–15. https://doi.org/10.1002/ece3.4678

    Supplementary Data              Raw Data


    Banisakher D, Presa-Reyes ME, Eisenberg JD, Allen J, Finlayson MA, Price R, Chen SC. "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. https://ieeexplore.ieee.org/document/8424737/authors#authors         


    C. M. Perez, 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

    Supplementary Data              Raw Data 


    Tose LV, Benigni P, Leyva D, Sundberg A, Ramírez CE, Ridgeway ME (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. DOI: 10.1002/rcm.8165

    Supplementary Data            


    Joshua Eisenberg. Automatic Extraction of Narrative Structure from Long Form Text. (2018). Florida International University. https://digitalcommons.fiu.edu/etd/3912/


    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. DOI: 10.25148/etd.FIDC006530


    Jason Howard. Understanding drivers of Blue Carbon storage and preservation in seagrass ecosystems. (2018). Florida International University.

    Raw Data

  • 2017

    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, e55325DOI: 10.3791/55352


    Benigni, P., Ridgeway, M.E., Park, M.A., Fernandez-Lima, F., "Towards structural molecular analysis of complex samples using TIMS-FT- ICR MS" Emerging Researchers National (ERN) Conference in Science, Technology, Engineering and Mathematics (STEM) 2017, Washington, DC.


    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 5978-5988https://doi.org/10.1021/acs.est.7b00508

    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. DOI: 10.1109/IRI.2017.49


    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. https://doi.org/10.1016/j.envpol.2017.04.101


    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. DOI: 10.1016/j.aquatox.2017.03.006


    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.  DOI:10.1109/bigmm.2017.36


    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. https://doi.org/10.1016/j.marenvres.2017.06.009


    Regier, P. “Linking Organic Matter Dynamics to Management, Restoration, and Climate in the Florida Everglades” (2017) FIU Electronic Theses and Dissertations.3385. DOI:10.25148/etd.FIDC001952


    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 Physiology 2017, Vol. 8 (490). DOI: 10.3389/fphys.2017.00490


    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. DOI: 10.1109/BigMM.2017.30

  • 2016

    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. DOI: 10.1016/j.ecss.2016.11.013


    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. DOI: 10.1109/IRI.2016.82


    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. DOI:10.1109/ISM.2016.0048


    Rodriguez-Casariego, J., Campbell, S., Ladd, M., Shantz, A., Roberts, S., Burkepile, D., Eirin-Lopez, J.M. "Preliminary analysis of the epigenetic mechanisms underlying acclimatory responses to nutrient pollution in stony corals" 7th Society of Environmental Toxicology and Chemistry (SETAC) North America 37th Annual Meeting 2016, Orlando, FL.


    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. DOI: 10.1109/IRI.2016.87


    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. DOI: 10.1109/IRI.2016.88

Conferences & Meetings

  • 2019

    Afia Anjunman, American Chemical Society in Orlando, FL. February 20, 2019. View presentation.


    Melinda Paudini, Association of Marine Labs of the Caribbean 39th Conference. March 4, 2019. View presentation.


    Matthew Smith, Urban Resilience to Extremes Sustainability Research Network's All Hands Meeting, Baltimore, MD. March 20, 2019. View presentation.


    Jennie Rivera, American Chemical Society in Orlando, FL. March 25, 2019. View presentation.


    Anthony Castellanos, American Society for Mass Spectrometry (ASMS) Conference. April 4, 2019. View presentation.


    Clement Olanrewaju, American Society for Mass Spectrometry (ASMS) Conference. April 11, 2019.


    Dennys Leyva, American Society for Mass Spectrometry (ASMS) Conference. April 11, 2019. View presentation. 


    Anthony Castellanos, Florida Annual Meeting and Exposition (FAME), Florida Local Section of the American Chemical Society (FLACS). April 24, 2019. View presentation.


    Dennys Leyva, Florida Annual Meeting and Exposition (FAME), Florida Local Section of the American Chemical Society (FLACS). April 24, 2019. View presentation.  


    Clement Olanrewaju, Florida Annual Meeting and Exposition (FAME), Florida Local Section of the American Chemical Society (FLACS). April 25, 2019.


    Alex Mercado Molina, Netlogo Modelling workshop in Germany. May 31, 2019. View presentation.


    Serena Hackerott, MEGA Functional Genomics and Gene Expression Workshop. June 5, 2019.


    Anteneh Abiy, Earth Educators’ Rendezvous workshop. June 26, 2019.


    Brian Ng, Society of Environmental Toxicology and Chemistry (SETAC). September 17, 2019. View presentation.


    Steven Landeweer, Society of Environmental Toxicology and Chemistry (SETAC). September 17, 2019. View presentation.


    Autumn Henderson, Society of Environmental Toxicology and Chemistry (SETAC). September 17, 2019. View presentation.


    Natasha Viadero, Coastal and Estuarine Research Federation (CERF) conference. September 26, 2019.


    Lowell Iporac, Gulf Coast and Fisheries Institute (GCFI) conference. September 27, 2019. View presentation. 


    Marbelys Garriga, VoLo VISTA climate correction conference finalist presentation. September 30, 2019. View presentation. 


    Nicholas Castillo, Coastal and Estuarine Research Federation (CERF) conference. October 8, 2019. View presentation.


    Francisco Pena Guerra, Southeast Florida Regional Climate Leadership Summit. December 3, 2019. View presentation. 

  • 2018
    Anthony Castellanos, American Society for Mass Spectrometry Conference. March 20, 2018. View presentation.

     Javier Rodriguez-Casariego, 9th International Symbiosis Society Congress, Oregon State. May 3, 2018.


    Javier Rodriguez-Casariego, Coral Reef Ecology: Reef Response to Environmental Change course in BIOS Bermuda. May 14, 2018.


    Autumn Henderson, Society of Environmental Toxicology and Chemistry (SETAC). August 14, 2018. View presentation.


    Steven Landeweer, Society of Environmental Toxicology and Chemistry (SETAC). August 15, 2018. View presentation. 


    Brian Ng, Society of Environmental Toxicology and Chemistry (SETAC). August 15, 2018. View presentation. 


    Jone Corrales, Society of Environmental Toxicology and Chemistry (SETAC). August 21, 2018.


    Jone Corrales, Association of Ecosystem Research Centers meeting (AERC). August 21, 2018.


    Rose Santana, Association of Ecosystem Research Centers meeting (AERC). August 22, 2018.


    Connor Born, Geologic Society of America conference. September 28, 2018. View presentation.


    Danielle E. Ogurak, Association for the Sciences of Limnology and Oceanography (ASLO) Aquatic Science meeting in San Juan. October 17, 2018. View presentation.


    Angelica Moncada, American Geophysical Union meeting. October 25, 2018. View presentation.


    Samuel Kent, American Geophysical Union meeting. October 30, 2018. View presentation. 


    Anteneh Abiy, American Geophysical Union meeting. October 31, 2018. View presentation.


    Christian Lopes, Association for the Sciences of Limnology and Oceanography (ASLO) Aquatic Science meeting. November 6, 2018.


    Javier Rodriguez-Casariego, Association for the Sciences of Limnology and Oceanography (ASLO) Aquatic Science meeting. December 13, 2018. 

  • 2017

    Kalli Unthank, Alan Alda Center for Communicating Science Boot Camp. January 19, 2017. View presentation. 


    Paolo Benigni, Emerging Researchers National Conference. January 21, 2017. View presentation.


    Jason Howard, Blue Carbon Initiatives Scientific Working Group Annual Workshop. February 16, 2017.  


    Danielle E. Ogurak, Course: 2017 NEON Data Institute: Remote Sensing with Reproducible Workflows. March 21, 2017.


    Javier Rodriguez-Casariego, Association of Marine Laboratories of the Carribean Meeting, Mexico. April 13, 2017.


    Josh Eisenberg, IEEE International Conference on Information Reuse and Integration (IRI). June 19, 2017. View presentation.


    Christian Lopes and Jason Howard, Blue Carbon Initiatives Scientific Working Group Annual Workshop. August 3, 2017.


    Abraham Smith, Early Emerging Metazoan Conference. August 11, 2017. View presentation.

Facilities & Equipment

CREST CAChE provides computer stations, labs and workspaces on both the Modesto Maidique and Biscayne Bay Campuses at Florida International University, which are available to all affiliated students, postdocs, faculty and staff.

The Center also operates 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.

Research & Development Lab (MMC: CASE-158)

  • YSI research buoys
  • Handheld YSI sonde
  • Field laptops/tablets
  • HOBO water level loggers
  • GoPro field cameras

Data Synthesis & Visualization Lab (MMC: OE-112)

  • Computer stations, including:
    • 43" 4K monitor
    • dual 27" monitors
  • ARC GIS software
  • Molgen software

CREST CAChE Biscayne Bay Offices (BBC: AC1-331)

  • Computer stations
  • Science drones
  • GoPro Field Cameras
  • Office supplies
  • Student library

Logos

Here are the different variations of our standardized CREST CAChE logos, plus a guide on how to acknowledge NSF and more in all CREST-supported posters and/or presentations: Poster/Presentation Acknowledgment Guidelines