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Development of a pelagic biogeochemical model with enhanced computational performance by optimizing ecological complexity and spatial resolution

Author

Listed:
  • Ertürk, Ali
  • Sakurova, Ilona
  • Zilius, Mindaugas
  • Zemlys, Petras
  • Umgiesser, Georg
  • Kaynaroglu, Burak
  • Pilkaitytė, Renata
  • Razinkovas-Baziukas, Artūras

Abstract

Introducing ESTAS-AQUABC, a new software tool designed for modelling nutrient cycles and eutrophication in highly-eutrophic estuaries. Our focus on replicating intense cyanobacteria blooms and N2-fixation sets us apart from other estuary models. We account for N2-fixation by cyanobacteria, the inorganic carbon cycle, non-conservative alkalinity, and pH calculations through CO2SYS integration. AQUABC also includes ammonia-stripping at high pH in its kinetic sub-model. ESTAS-AQUABC uses box modelling approach where the fluxes between boxes are calculated by a hydrodynamical model, in our case the SHYFEM model. This approach is robust, especially when field data for calibration is scarce, saving computational time. While our model accurately reproduced pelagic N2-fixation rates, inorganic nutrient dynamics were less precise, mainly due to the absence of bentho-pelagic exchange processes. ESTAS-AQUABC provides a useful tool to investigate nutrient retention from land to open sea, which could be important to mitigate eutrophication in estuarine systems and the adjacent coastal areas.

Suggested Citation

  • Ertürk, Ali & Sakurova, Ilona & Zilius, Mindaugas & Zemlys, Petras & Umgiesser, Georg & Kaynaroglu, Burak & Pilkaitytė, Renata & Razinkovas-Baziukas, Artūras, 2023. "Development of a pelagic biogeochemical model with enhanced computational performance by optimizing ecological complexity and spatial resolution," Ecological Modelling, Elsevier, vol. 486(C).
    • Handle: RePEc:eee:ecomod:v:486:y:2023:i:c:s0304380023002399
    DOI: 10.1016/j.ecolmodel.2023.110509
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    1. Rodrigues, M. & Oliveira, A. & Queiroga, H. & Fortunato, A.B. & Zhang, Y.J., 2009. "Three-dimensional modeling of the lower trophic levels in the Ria de Aveiro (Portugal)," Ecological Modelling, Elsevier, vol. 220(9), pages 1274-1290.
    2. Hense, Inga & Beckmann, Aike, 2010. "The representation of cyanobacteria life cycle processes in aquatic ecosystem models," Ecological Modelling, Elsevier, vol. 221(19), pages 2330-2338.
    3. Hull, Vincent & Parrella, Luisa & Falcucci, Margherita, 2008. "Modelling dissolved oxygen dynamics in coastal lagoons," Ecological Modelling, Elsevier, vol. 211(3), pages 468-480.
    4. Serizawa, Hiroshi & Amemiya, Takashi & Itoh, Kiminori, 2010. "Effects of buoyancy, transparency and zooplankton feeding on surface maxima and deep maxima: Comprehensive mathematical model for vertical distribution in cyanobacterial biomass," Ecological Modelling, Elsevier, vol. 221(17), pages 2028-2037.
    5. Jia, Haifeng & Zhang, Yansong & Guo, Yu, 2010. "The development of a multi-species algal ecodynamic model for urban surface water systems and its application," Ecological Modelling, Elsevier, vol. 221(15), pages 1831-1838.
    6. Lopes, José Fortes & Almeida, M.A. & Cunha, M.A., 2010. "Modelling the ecological patterns of a temperate lagoon in a very wet spring season," Ecological Modelling, Elsevier, vol. 221(19), pages 2302-2322.
    7. Hochard, Sébastien & Pinazo, Christel & Grenz, Christian & Evans, Jessica L. Burton & Pringault, Olivier, 2010. "Impact of microphytobenthos on the sediment biogeochemical cycles: A modeling approach," Ecological Modelling, Elsevier, vol. 221(13), pages 1687-1701.
    8. Turner, Evan L. & Bruesewitz, Denise A. & Mooney, Rae F. & Montagna, Paul A. & McClelland, James W. & Sadovski, Alexey & Buskey, Edward J., 2014. "Comparing performance of five nutrient phytoplankton zooplankton (NPZ) models in coastal lagoons," Ecological Modelling, Elsevier, vol. 277(C), pages 13-26.
    9. Ruzicka, James J. & Wainwright, Thomas C. & Peterson, William T., 2011. "A simple plankton model for the Oregon upwelling ecosystem: Sensitivity and validation against time-series ocean data," Ecological Modelling, Elsevier, vol. 222(6), pages 1222-1235.
    10. Dugdale, Richard C. & Wilkerson, Frances P. & Parker, Alexander E., 2016. "The effect of clam grazing on phytoplankton spring blooms in the low-salinity zone of the San Francisco Estuary: A modelling approach," Ecological Modelling, Elsevier, vol. 340(C), pages 1-16.
    11. Zouiten, Hala & Díaz, César Álvarez & Gómez, Andrés García & Cortezón, José Antonio Revilla & Alba, Javier García, 2013. "An advanced tool for eutrophication modeling in coastal lagoons: Application to the Victoria lagoon in the north of Spain," Ecological Modelling, Elsevier, vol. 265(C), pages 99-113.
    12. Sohma, Akio & Sekiguchi, Yasuyuki & Kuwae, Tomohiro & Nakamura, Yoshiyuki, 2008. "A benthic–pelagic coupled ecosystem model to estimate the hypoxic estuary including tidal flat—Model description and validation of seasonal/daily dynamics," Ecological Modelling, Elsevier, vol. 215(1), pages 10-39.
    13. Trolle, Dennis & Skovgaard, Henrik & Jeppesen, Erik, 2008. "The Water Framework Directive: Setting the phosphorus loading target for a deep lake in Denmark using the 1D lake ecosystem model DYRESM–CAEDYM," Ecological Modelling, Elsevier, vol. 219(1), pages 138-152.
    14. Cosme, Nuno & Koski, Marja & Hauschild, Michael Z., 2015. "Exposure factors for marine eutrophication impacts assessment based on a mechanistic biological model," Ecological Modelling, Elsevier, vol. 317(C), pages 50-63.
    15. Chung, Eu Gene & Bombardelli, Fabián A. & Schladow, S. Geoffrey, 2009. "Modeling linkages between sediment resuspension and water quality in a shallow, eutrophic, wind-exposed lake," Ecological Modelling, Elsevier, vol. 220(9), pages 1251-1265.
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