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Seagrass meadows are one of the most important benthic habitats in the Baltic Sea. Nevertheless, spatially continuous mapping data of Zostera marina, the predominant seagrass species in the Baltic Sea, are lacking in the shallow coastal waters. Sentinel-2 turned out to be valuable for mapping coastal benthic habitats in clear waters, whereas knowledge in turbid waters is rare. Here, we transfer a clear water mapping approach to turbid waters to assess how Sentinel-2 can contribute to seagrass mapping in the Western Baltic Sea. Sentinel-2 data were atmospherically corrected using ACOLITE and subsequently corrected for water column effects. To generate a data basis for training and validating random forest classification models, we developed an upscaling approach using video transect data and aerial imagery. We were able to map five coastal benthic habitats: bare sand (25 km²), sand dominated (16 km²), seagrass dominated (7 km²), dense seagrass (25 km²) and mixed substrates with red/ brown algae (3.5 km²) in a study area along the northern German coastline. Validation with independent data pointed out that water column correction does not significantly improve classification results compared to solely atmospherically corrected data (balanced overall accuracies ˜0.92). Within optically shallow waters (0–4 m), per class and overall balanced accuracies (>0.82) differed marginally depending on the water depth. Overall balanced accuracy became worse (<0.8) approaching the border to optically deep water (˜ 5 m). The spatial resolution of Sentinel-2 (10–20 m) allowed delineating detailed spatial patterns of seagrass habitats, which may serve as a basis to retrieve spatially continuous data for ecologically relevant metrics such as patchiness. Thus, Sentinel-2 can contribute unprecedented information for seagrass mapping between 0 and around 5 m water depths in the Western Baltic Sea.

Seagrass meadows are one of the most important benthic habitats in the Baltic Sea. Nevertheless, spatially continuous mapping data of Zostera marina, the predominant seagrass species in the Baltic Sea, are lacking in the shallow coastal waters. Sentinel-2 turned out to be valuable for mapping coastal benthic habitats in clear waters, whereas knowledge in turbid waters is rare. Here, we transfer a clear water mapping approach to turbid waters to assess how Sentinel-2 can contribute to seagrass mapping in the Western Baltic Sea. Sentinel-2 data were atmospherically corrected using ACOLITE and subsequently corrected for water column effects. To generate a data basis for training and validating random forest classification models, we developed an upscaling approach using video transect data and aerial imagery. We were able to map five coastal benthic habitats: bare sand (25 km²), sand dominated (16 km²), seagrass dominated (7 km²), dense seagrass (25 km²) and mixed substrates with red/ brown algae (3.5 km²) in a study area along the northern German coastline. Validation with independent data pointed out that water column correction does not significantly improve classification results compared to solely atmospherically corrected data (balanced overall accuracies ˜0.92). Within optically shallow waters (0–4 m), per class and overall balanced accuracies (>0.82) differed marginally depending on the water depth. Overall balanced accuracy became worse (<0.8) approaching the border to optically deep water (˜ 5 m). The spatial resolution of Sentinel-2 (10–20 m) allowed delineating detailed spatial patterns of seagrass habitats, which may serve as a basis to retrieve spatially continuous data for ecologically relevant metrics such as patchiness. Thus, Sentinel-2 can contribute unprecedented information for seagrass mapping between 0 and around 5 m water depths in the Western Baltic Sea.

Submarine groundwater discharge (SGD) into coastal areas is a common global phenomenon and is rapidly gaining scientific interest due to its influence on marine ecology, the coastal sedimentary environment and its potential as a future freshwater resource. We conducted an integrated study of hydroacoustic surveys combined with geochemical porewater and water column investigations at a well‐known groundwater seep site in Eckernförde Bay (Germany). We aim to better constrain the effects of shallow gas and SGD on high frequency multibeam backscatter data and to present acoustic indications for submarine groundwater discharge. Our high‐quality hydroacoustic data reveal hitherto unknown internal structures within the pockmarks in Eckernförde Bay. Using precisely positioned sediment core samples, our hydroacoustic‐geochemical approach can differentiate intra‐pockmark regimes that were formerly assigned to pockmarks of a different nature. We demonstrate that high‐frequency multibeam data, in particular the backscatter signals, can be used to detect shallow free gas in areas of enhanced groundwater advection in muddy sediments. Intriguingly, our data reveal relatively small (typically <15 m across) pockmarks within the much larger, previously mapped, pockmarks. The small pockmarks, which we refer to as “intra‐pockmarks”, have formed due to the localized ascent of gas and groundwater; they manifest themselves as a new type of ‘eyed’ pockmarks, revealed by their acoustic backscatter pattern. Our data suggest that, in organic‐rich muddy sediments, morphological lows combined with a strong multibeam backscatter signal can be indicative of free shallow gas and subsequent advective groundwater flow.