The Mar Menor, Europe's largest coastal lagoon, located in Spain, has undergone severe eutrophication crises. Monitoring chlorophyll-a (Chl-a) is essential to anticipate harmful algal blooms and guide mitigation. Traditional in situ measurements are spatially and temporally limited. Satellite-based approaches provide a more comprehensive view, enabling scalable, long-term, and transferable monitoring. This study aims to overcome limitations of chlorophyll monitoring, often restricted to surface estimates or limited temporal coverage, by developing a reliable methodology to predict and map Chl-a across the water column of the Mar Menor. The work integrates Sentinel 2 imagery with buoy-based ground truth to create models capable of high-resolution, depth-specific monitoring, enhancing early-warning capabilities for eutrophication. Nearly a decade of Sentinel 2 images was atmospherically corrected using C2RCC processors. Buoy data were aggregated by depth (0-1 m, 1-2 m, 2-3 m, 3-4 m). Multiple ML and DL algorithms-including RF, XGBoost, CatBoost, Multilater Perceptron Networks, and ensembles-were trained and validated using cross-validation. Systematic band-combination experiments and spatial aggregation strategies were tested to optimize prediction. Results show depth-dependent performance. At the surface, C2X-Complex with XGBoost and ensemble models achieved R2 = 0.89; at 1-2 m, CatBoost and ensemble models reached R2 = 0.87; at 2-3 m, TOA reflectances with KNN performed best (R2 = 0.81); while at 3-4 m, RF achieved R2 = 0.66. Generated maps successfully reproduced known eutrophication events (e.g., 2016 crisis, 2025 surge), confirming robustness. The study delivers an end-to-end, validated methodology for depth-specific Chl-amapping. Its integration of multispectral band combinations, buoy calibration, and ML/DL modeling offers a transferable framework for other turbid coastal systems.
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