Rory Quinn

Understanding the spatial dynamics of harbour porpoise (Phocoena phocoena) is crucial for effective conservation and management. The study presents a multidisciplinary approach to modelling and analysing the site occurrence and habitat use of Phocoena phocoena within the Skerries and Causeway Special Area of Conservation (SAC), identifying areas where they were seen surfacing and/or spending the most time. Using data derived from multibeam echosounders (MBES), particle size analysis of sediments, hydrodynamic modelling, and theodolite tracking observations, the study examines the influence of local hydrodynamics and environmental conditions on the spatial distribution of harbour porpoises. Kernel density analysis of 451 porpoise sightings over an 11‐day survey demonstrated that dense clusters and higher aggregations occurred within ~500 m of the shoreline. Generalised Additive Models (GAMs) identified slope, aspect, backscatter intensity and sediment grain size as the most significant environmental predictors, accounting for 47.6% of the deviance in harbour porpoise distribution. Porpoises' occurrence was particularly spatially coincident with coarser sediments (4.25–5 mm), and their distribution was highly concentrated around headlands, shoreline and within a 3‐h window before and after high water. Overall, these findings highlight the dynamic nature of harbour porpoises' use of habitat in space and time, with models predicting a high probability of porpoise encounters (> 0.6) nearshore, particularly in headland areas characterised by local flow acceleration and coarser seabeds. The study presents a robust workflow for developing a porpoise‐specific monitoring program. By leveraging multidisciplinary methodological approaches, the study provides a scientific basis for refining marine conservation measures, delivering long‐term protection for harbour porpoise habitats under existing legal and management frameworks both within and beyond the SAC boundaries.

Acoustic methods are routinely used to provide broad scale information on the geographical distribution of benthic marine habitats and sedimentary environments. Although single-frequency multibeam echosounder surveys have dominated seabed characterisation for decades, multifrequency approaches are now gaining favour in order to capture different frequency responses from the same seabed type. The aim of this study is to develop a robust modelling framework for testing the potential application and value of multifrequency (30, 95, and 300 kHz) multibeam backscatter responses to characterize sediments’ grain size in an area with strong geomorphological gradients and benthic ecological variability. We fit a generalized linear model on a multibeam backscatter and its derivatives to examine the explanatory power of single-frequency and multifrequency models with respect to the mean sediment grain size obtained from the grab samples. A strong and statistically significant (p < 0.05) correlation between the mean backscatter and the absolute values of the mean sediment grain size for the data was noted. The root mean squared error (RMSE) values identified the 30 kHz model as the best performing model responsible for explaining the most variation (84.3%) of the mean grain size at a statistically significant output (p < 0.05) with an adjusted r² = 0.82. Overall, the single low-frequency sources showed a marginal gain on the multifrequency model, with the 30 kHz model driving the significance of this multifrequency model, and the inclusion of the higher frequencies diminished the level of agreement. We recommend further detailed and sufficient ground-truth data to better predict sediment properties and to discriminate benthic habitats to enhance the reliability of multifrequency backscatter data for the monitoring and management of marine protected areas.

Shipwrecks are an integral part of our maritime archaeological landscape and are associated with diverse societal and cultural interests, yielding significant management challenges. Coupled hydrodynamic and geomorphological processes significantly impact the effective in situ preservation of these fragile sites. In this study, we assess sediment budget change and hydrodynamic triggers at metal‐hulled shipwrecks lost between 1875 and 1918, all located in the tidally dominated Irish Sea at depths between 26 and 84 m. This is conducted using time‐lapse, multibeam echosounder surveys at multiannual, annual, and weekly time steps, supported by sediment grain‐size analysis, modeled ocean currents, and shallow seismic data. Results indicate significant changes at all time steps for sites located in sand‐dominated environments, whereas the seabed around shipwrecks settled in multimodal sediments shows virtually no change outside of measurement errors (±30 cm). Variability in geomorphic change is attributed to local environmental factors, including bed shear stress, sediment supply, and spatial barriers to scour. We demonstrate that individual wrecks in similar shelf sea regions can be in very different equilibrium states, which has critical implications for the in situ management of underwater cultural heritage.

Scour processes play a critical role in the preservation status of submerged historic shipwrecks. Erosion of sediment leads to enhanced exposure of archaeological sites to physical, chemical and biological processes. Current methods for identifying erosional and depositional features at wreck sites are based primarily on visual interpretation of data, which is labour-intensive and entirely subjective. The increasing availability of high-resolution multibeam echosounder–derived digital elevation models (DEMs) of historic wreck sites allows for an entirely new level of detailed interrogation and analyses of the geomorphological features associated with these. In this study, we present a residual relief modelling method for the semi-automated extraction of such depositional and erosional features at wreck sites. Relief modelling is supplemented with a breakpoint classification approach, with final separation supported by DEM visualisation enhancement techniques. We applied the method to three World War I shipwreck sites and evaluated it against traditional manual vectorisation techniques. The results suggest that the semi-automated modelling method is robust, time-effective and capable of quantifying the products of scour processes with increased objectivity. Our method holds great potential for the objective characterisation of erosional and depositional patterns and processes at wreck sites, which have important implications for site formation studies and in situ preservation of underwater cultural heritage.

Species distribution models (SDMs) are commonly used to model the spatial structure of species in the marine environment, however, most fail to account for detectability of the target species. This can result in underestimates of occupancy, where nondetection is conflated with absence. The site occupancy model (SOM) overcomes this failure by treating occupancy as a latent variable of the model and incorporates a detection submodel to account for variability in detection rates. These have rarely been applied in the context of marine fish and never for the multiseason dynamic occupancy model (DOM). In this study, a DOM is developed for a designated species of concern, cusk (Brosme brosme), over a four‐season period. Making novel use of a high‐resolution 3‐dimensional hydrodynamic model, detectability of cusk is considered as a function of current speed and algae cover. Algal cover on the seabed is measured from video surveys to divide the study area into two distinct regions: those with canopy forming species of algae and those without (henceforth bottom types). Modeled estimates of the proportion of sites occupied in each season are 0.88, 0.45, 0.74, and 0.83. These are significantly greater than the proportion of occupied sites measured from underwater video observations which are 0.57, 0.28, 0.43, and 0.57. Individual fish are detected more frequently with increasing current speed in areas lacking canopy and less frequently with increasing current speed in areas with canopy. The results indicate that, where possible, SDM studies for all marine species should take account of detectability to avoid underestimating the proportion of sites occupied at a given study area. Sampling closed areas or areas of conservation often requires the use of nonphysical, low impact sampling methods like camera surveys. These methods inherently result in detection probabilities less than one, an issue compounded by time‐varying features of the environment that are rarely accounted for marine studies. This work highlights the use of modeled hydrodynamics as a tool to correct some of this imbalance.