Abstract. Seabed sediment mapping is important for a wide range of marine policy, planning and scientific issues, and there has been considerable national and international investment around the world in the collation and synthesis of sediment datasets. However, in Europe at least, much of this effort has been directed towards seabed classification and mapping of discrete habitats. Scientific users often have to resort to reverse engineering these classifications to recover continuous variables, such as mud content and median grain size, that are required for many ecological and biophysical studies. Here we present a new set of 0.125 • by 0.125 • resolution synthetic maps of continuous properties of the north-west European sedimentary environment, extending from the Bay of Biscay to the northern limits of the North Sea and the Faroe Islands. The maps are a blend of gridded survey data, statistically modelled values based on distributions of bed shear stress due to tidal currents and waves, and bathymetric properties. Recent work has shown that statistical models can predict sediment composition in British waters and the North Sea with high accuracy, and here we extend this to the entire shelf and to the mapping of other key seabed parameters. The maps include percentage compositions of mud, sand and gravel; porosity and permeability; median grain size of the whole sediment and of the sand and the gravel fractions; carbon and nitrogen content of sediments; percentage of seabed area covered by rock; mean and maximum depth-averaged tidal velocity and wave orbital velocity at the seabed; and mean monthly natural disturbance rates. A number of applications for these maps exist, including species distribution modelling and the more accurate representation of sea-floor biogeochemistry in ecosystem models. The data products are available from https://doi.org/10.15129/1e27b806-1eae-494d-83b5-a5f4792c46fc.

Seawater turbidity due to suspended particulate material (SPM) is an important property of a marine ecosystem, determining the underwater light environment and many aspects of biological production and ecology. SPM concentrations are largely determined by patterns of sediment resuspension from the seabed due to shear stress caused by waves and currents. Hence planning for the construction of large scale offshore structures which will alter regional hydrodynamics needs to consider the consequences for SPM concentrations. Here we develop a one-dimensional (vertical) model of SPM dynamics which can be used to scope the effects of changes in wave and tidal current properties at a site. We implement the model for a number of sites off the east coast of Scotland where we have extensive data sets to enable numerical parameter optimisation. The model performs well at simulating fluctuations in turbidity varying from flood-ebb tidal cycles, spring-neap cycles, storm wave events, and an annual cycle of SPM concentration which is attributed to seasonal consolidation of seabed sediments. Sensitivity analysis shows that, for the range of seabed sediment types in the study (water depth 16 – 50 m; mud content 0.006 – 0.380 proportion by weight), relatively large (50%) attenuations of tidal current speed are required to produce changes in water column turbidity which would be detectable by observations given the variability in measurements. The model has potential for application to map the large scale sensitivity of turbidity distributions to the installation of wave and tidal energy extraction arrays

Storm surges are an abnormal enhancement of the water level in response to weather perturbations. They have the capacity to cause damaging flooding of coastal regions, especially when they coincide with astronomical high spring tides. Some areas of the UK have suffered particularly damaging surge events, and the Firth of Clyde is a region with high risk due to its location and morphology. Here, we use a three-dimensional high spatial resolution hydrodynamic model to simulate the local bathymetric and morphological enhancement of surge in the Clyde, and disaggregate the effects of far-field atmospheric pressure distribution and local scale wind forcing of surges. A climatological analysis, based on 30 years of data from Millport tide gauges, is also discussed. The results suggest that floods are not only caused by extreme surge events, but also by the coupling of spring high tides with moderate surges. Water level is also enhanced by a funnelling effect due to the bathymetry and the morphology of fjordic sealochs and the River Clyde Estuary. In a world of rising sea level, studying the propagation and the climatology of surges and high water events is fundamental. In addition, high-resolution hydrodynamic models are essential to forecast extreme events and to prevent the loss of lives, or to plan coastal defences solutions.

The adduction of fumaric acid to the sulfhydryl group of certain cysteine (Cys) residues in proteins via a Michaellike reaction leads to the formation of S-(2-succino)cysteine (2SC) sites. Although its role remains to be fully understood, this post-translational Cys modification (protein succination) has been implicated in the pathogenesis of diabetes/obesity and fumarate hydratase-related diseases. In this study, theoretical approaches to address sequence-and 3D-structure-based features possibly underlying the specificity of protein succination have been applied to perform the first analysis of the available data on the succinate proteome. A total of 182 succinated proteins, 205 modifiable, and 1750 non-modifiable sites have been examined. The rate of 2SC sites per protein ranged from 1 to 3, and the overall relative abundance of modifiable sites was 10.8%. Modifiable and nonmodifiable sites were not distinguishable when the hydrophobicity of the Cys-flaking peptides, the acid dissociation constant value of the sulfhydryl groups, and the secondary structure of the Cys-containing segments were compared. By contrast, significant differences were determined when the accessibility of the sulphur atoms and the amino acid composition of the Cys-flaking peptides were analysed. Based on these findings, a sequence-based score function has been evaluated as a descriptor for Cys residues. In conclusion, our results indicate that modifiable and non-modifiable sites form heterogeneous subsets when features often discussed to describe Cys reactivity are examined. However, they also suggest that some differences exist, which may constitute the baseline for further investigations aimed at the development of predictive methods for 2SC sites in proteins.

Nature conservation and fisheries management often focus on particular seabed features that are considered vulnerable or important to commercial species. As a result, individual seabed types are protected in isolation, without any understanding of what effect the mixture of seabed types within the landscape has on ecosystem functions. Here we undertook predictive seabed modelling within a coastal marine protected area using observations from underwater stereo-video camera deployments and environmental information (depth, wave fetch, maximum tidal speeds, distance from coast and underlying geology). The effect of the predicted substratum type, extent and heterogeneity or the diversity of substrata, within a radius of 1500 m around each camera deployment of juvenile gadoid relative abundance was analysed. The predicted substratum model performed well with wave fetch and depth being the most influential predictor variables. Gadus morhua (Atlantic cod) were associated with relatively more rugose substrata (Algal-gravel-pebble and seagrass) and heterogeneous landscapes, than Melanogrammus aeglefinus (haddock) or Merlangius merlangus (whiting) (sand and mud). An increase in M. merlangus relative abundance was observed with increasing substratum extent. These results reveal that landscape effects should be considered when protecting the seabed for fish and not just individual seabed types. The landscape approach used in this study therefore has important implications for marine protected area, fisheries management and monitoring advice concerning demersal fish populations.

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Salinity observations in the Vietnamese upwelling area in June 2016 indicated a significant increase in the salinity of the maximum salinity water (MSW). The source of MSW inflow into the South China Sea (SCS) is a mixture of the Western North Pacific Central Water and the North Pacific Equatorial Water. Although the East Asian winter monsoon is correlated with both the El Niño Southern Oscillation (ENSO) and the Pacific Decadal Oscillation (PDO), the mean salinity of MSW is only spuriously lag correlated to the PDO, but highly correlated to all tropical climate modes (except El Niño Modoki) with a time lag up to 7 months. Composite analyses indicate that the modulation of ENSO by a PDO in a positive phase results in optimal inflow conditions. A comparison of two post-El Niño years with different PDO polarity (negative in 2003 and positive in 2016) shows that the dominant driver is the variability in outgoing long-wave radiation (OLR) and in zonal wind in the tropics. In 2003, enhanced convective activity over the West Pacific warm pool resulted in a cyclonic circulation. In 2016, convective activity was weak and an anticyclonic circulation was intensified, which transported the saltier North Pacific Equatorial Water into the SCS. This observed increase in the salinity of MSW requires a modification of the previous definitions of characteristic water masses, which is presented here. The question of whether or not the increase in MSW salinity is a transient phenomenon cannot be answered. It might be possible that the increase in salinity is related to global warming.

Abstract. Seabed sediment mapping is important for a wide range of marine policy, planning and scientific issues, and there has been considerable national and international investment around the world in the collation and synthesis of sediment data sets. However, in Europe at least, much of this effort has been directed towards seabed classification and mapping of discrete habitats. Scientific users often have to resort to reverse-engineering these classifications to recover continuous variables such as mud content and median grain size that are required for many ecological and biophysical studies. Here we present a new set of 0.125 by 0.125° resolution synthetic maps of continuous properties of the northwest European sedimentary environment, extending from the Bay of Biscay to the northern limits of the North Sea and the Faroe Islands. The maps are a blend of gridded survey data, and statistically modelled values based on distributions of bed shear stress due to tidal currents and waves, and bathymetric properties. Recent work has shown that statistical models can predict sediment composition in British waters and the North Sea with high accuracy, and here we extend this to the entire shelf and to the mapping of other key seabed parameters. The maps include percentage compositions of mud, sand and gravel; porosity and permeability; median grain size of the whole-sediment and of the sand and the gravel fractions; carbon and nitrogen content of sediments; percentage of seabed area covered by rock; mean and maximum depth-averaged tidal velocity and wave-orbital velocity at the seabed; and mean monthly natural disturbance rates. A number of applications for these maps exist, including species distribution modelling and the more accurate representation of seafloor biogeochemistry in ecosystem models. The data products are available from doi:10.15129/07bc686e-a354-40de-8c08-372ced7aad64.