Microplastic trapping efficiency and hydrodynamics in model coral reefs: A physical experimental investigation.

Coastal ecosystems, such as coral reefs, are vulnerable to microplastic pollution input from proximal riverine and shoreline sources. However, deposition, retention, and transport processes are largely unevaluated, especially in relation to hydrodynamics. For the first time, we experimentally investigate the retention of biofilmed microplastic by branching 3D printed corals (staghorn coral Acropora genus) under various unidirectional flows (U = {0.15, 0.20, 0.25, 0.30} ms-1) and canopy densities (15 and 48 corals m-2). These variables are found to drive trapping efficiency, with 79-98% of microplastics retained in coral canopies across the experimental duration at high flow velocities (U = 0.25-0.30 ms-1), compared to 10-13% for the bare bed, with denser canopies retaining only 15% more microplastics than the sparse canopy at highest flow conditions (U = 0.30 ms-1). Three fundamental trapping mechanisms were identified: (a) particle interception, (b) settlement on branches or within coral, and (c) accumulation in the downstream wake region of the coral. Corresponding hydrodynamics reveal that microplastic retention and spatial distribution is modulated by the energy-dissipative effects of corals due to flow-structure interactions reducing in-canopy velocities and generating localised turbulence. The wider ecological implications for coral systems are discussed in light of the findings, particularly in terms of concentrations and locations of plastic accumulation.

A high-resolution daily global dataset of statistically downscaled CMIP6 models for climate impact analyses.

A large number of historical simulations and future climate projections are available from Global Climate Models, but these are typically of coarse resolution, which limits their effectiveness for assessing local scale changes in climate and attendant impacts. Here, we use a novel statistical downscaling model capable of replicating extreme events, the Bias Correction Constructed Analogues with Quantile mapping reordering (BCCAQ), to downscale daily precipitation, air-temperature, maximum and minimum temperature, wind speed, air pressure, and relative humidity from 18 GCMs from the Coupled Model Intercomparison Project Phase 6 (CMIP6). BCCAQ is calibrated using high-resolution reference datasets and showed a good performance in removing bias from GCMs and reproducing extreme events. The globally downscaled data are available at the Centre for Environmental Data Analysis ( https://doi.org/10.5285/c107618f1db34801bb88a1e927b82317 ) for the historical (1981-2014) and future (2015-2100) periods at 0.25° resolution and at daily time step across three Shared Socioeconomic Pathways (SSP2-4.5, SSP5-3.4-OS and SSP5-8.5). This new climate dataset will be useful for assessing future changes and variability in climate and for driving high-resolution impact assessment models.

Inadequacy of fluvial energetics for describing gravity current autosuspension.

Gravity currents, such as sediment-laden turbidity currents, are ubiquitous natural flows that are driven by a density difference. Turbidity currents have provided vital motivation to advance understanding of this class of flows because their enigmatic long run-out and driving mechanisms are not properly understood. Extant models assume that material transport by gravity currents is dynamically similar to fluvial flows. Here, empirical research from different types of particle-driven gravity currents is integrated with our experimental data, to show that material transport is fundamentally different from fluvial systems. Contrary to current theory, buoyancy production is shown to have a non-linear dependence on available flow power, indicating an underestimation of the total kinetic energy lost from the mean flow. A revised energy budget directly implies that the mixing efficiency of gravity currents is enhanced.

Evolution of tetraspanin antigens in the zoonotic Asian blood fluke Schistosoma japonicum.

BACKGROUND: Despite successful control efforts in China over the past 60 years, zoonotic schistosomiasis caused by Schistosoma japonicum remains a threat with transmission ongoing and the risk of localised resurgences prompting calls for a novel integrated control strategy, with an anti-schistosome vaccine as a core element. Anti-schistosome vaccine development and immunisation attempts in non-human mammalian host species, intended to interrupt transmission, and utilising various antigen targets, have yielded mixed success, with some studies highlighting variation in schistosome antigen coding genes (ACGs) as possible confounders of vaccine efficacy. Thus, robust selection of target ACGs, including assessment of their genetic diversity and antigenic variability, is paramount. Tetraspanins (TSPs), a family of tegument-surface antigens in schistosomes, interact directly with the host's immune system and are promising vaccine candidates. Here, for the first time to our knowledge, diversity in S. japonicum TSPs (SjTSPs) and the impact of diversifying selection and sequence variation on immunogenicity in these protiens were evaluated. METHODS: SjTSP sequences, representing parasite populations from seven provinces across China, were gathered by baiting published short-read NGS data and were analysed using in silico methods to measure sequence variation and selection pressures and predict the impact of selection on variation in antigen protein structure, function and antigenic propensity. RESULTS: Here, 27 SjTSPs were identified across three subfamilies, highlighting the diversity of TSPs in S. japonicum. Considerable variation was demonstrated for several SjTSPs between geographical regions/provinces, revealing that episodic, diversifying positive selection pressures promote amino acid variation/variability in the large extracellular loop (LEL) domain of certain SjTSPs. Accumulating polymorphisms in the LEL domain of SjTSP-2, -8 and -23 led to altered structural, functional and antibody binding characteristics, which are predicted to impact antibody recognition and possibly blunt the host's ability to respond to infection. Such changes, therefore, appear to represent a mechanism utilised by S. japonicum to evade the host's immune system. CONCLUSION: Whilst the genetic and antigenic geographic variability observed amongst certain SjTSPs could present challenges to vaccine development, here we demonstrate conservation amongst SjTSP-1, -13 and -14, revealing their likely improved utility as efficacious vaccine candidates. Importantly, our data highlight that robust evaluation of vaccine target variability in natural parasite populations should be a prerequisite for anti-schistosome vaccine development.

Plastic pollution in riverbeds fundamentally affects natural sand transport processes.

Over the past 50 years, rivers have become increasingly important vectors for plastic pollution. Lowland riverbeds exhibit coherent morphological features including ripple and dune bedforms, which transport sediment downstream via well-understood processes, yet the impact of plastic on sediment transport mechanics is largely unknown. Here we use flume tank experiments to show that when plastic particles are introduced to sandy riverbeds, even at relatively low concentrations, novel bedform morphologies and altered processes emerge, including irregular bedform stoss erosion and dune "washout", causing topographic bedform amplitudes to decline. We detail (i) new mechanisms of plastic incorporation and transport in riverbed dunes, and (ii) how sedimentary processes are fundamentally influenced. Our laboratory flume tank experiments suggest that plastic is not a passive component of river systems but directly affects bed topography and locally increases the proportion of sand suspended in the water column, which at larger scales, has the potential to impact river ecosystems and wider landscapes. The resulting plastic distribution in the sediment is heterogeneous, highlighting the challenge of representatively sampling plastic concentrations in river sediments. Our insights are part of an ongoing suite of efforts contributing to the establishment of a new branch of process sedimentology: plastic - riverbed sand interactions.

Crystal Structures of a Cubic Tin(II) Germanate, α-Sn6GeO8, and a Tetragonal Tin(II) Silicate, γ-Sn6SiO8.

A cubic tin(II) germanate, α-Sn6GeO8 (space group F4̅3m, a = 10.52521(2) Å, and Z = 4), has been synthesized by both regular hydrothermal and microwave-assisted hydrothermal methods, and the crystal structure of this material has been solved by Rietveld refinement of synchrotron powder X-ray diffraction (PXRD) data. The crystal structure is analogous to α-Sn6SiO8 and is therefore related to the zinc blende structure comprising a face-centered cubic array of [Sn6O8]4- anionic clusters with Ge4+ cations occupying half of the tetrahedral holes. Variable-temperature PXRD has revealed that tin(II) germanate has high thermal stability: remaining stable at 950 K and mostly decomposing over the range 984-1034 K. The tin(II) germanate has been further characterized by X-ray fluorescence (XRF), Raman, and diffuse reflectance (DR) UV-vis spectroscopies. In addition, variable-temperature PXRD studies have revealed the formation of a tetragonal tin(II) silicate polymorph, γ-Sn6SiO8 (space group I4̅, a = 7.30414(6) Å, c = 10.53731(6) Å, and Z = 2), at temperatures below 170 K. The crystal structure of γ-Sn6SiO8 has been elucidated by Rietveld refinement. While a transition to a tetragonal polymorph is observed upon cooling α-Sn6SiO8, no corresponding transition is observed for α-Sn6GeO8, which retains its cubic structure over the probed temperature range.

Longest sediment flows yet measured show how major rivers connect efficiently to deep sea.

Here we show how major rivers can efficiently connect to the deep-sea, by analysing the longest runout sediment flows (of any type) yet measured in action on Earth. These seafloor turbidity currents originated from the Congo River-mouth, with one flow travelling >1,130 km whilst accelerating from 5.2 to 8.0 m/s. In one year, these turbidity currents eroded 1,338-2,675 [>535-1,070] Mt of sediment from one submarine canyon, equivalent to 19-37 [>7-15] % of annual suspended sediment flux from present-day rivers. It was known earthquakes trigger canyon-flushing flows. We show river-floods also generate canyon-flushing flows, primed by rapid sediment-accumulation at the river-mouth, and sometimes triggered by spring tides weeks to months post-flood. It is demonstrated that strongly erosional turbidity currents self-accelerate, thereby travelling much further, validating a long-proposed theory. These observations explain highly-efficient organic carbon transfer, and have important implications for hazards to seabed cables, or deep-sea impacts of terrestrial climate change.

Amplification of downstream flood stage due to damming of fine-grained rivers.

River dams provide many benefits, including flood control. However, due to constantly evolving channel morphology, downstream conveyance of floodwaters following dam closure is difficult to predict. Here, we test the hypothesis that the incised, enlarged channel downstream of dams provides enhanced water conveyance, using a case study from the lower Yellow River, China. We find that, although flood stage is lowered for small floods, counterintuitively, flood stage downstream of a dam can be amplified for moderate and large floods. This arises because bed incision is accompanied by sediment coarsening, which facilitates development of large dunes that increase flow resistance and reduce velocity relative to pre-dam conditions. Our findings indicate the underlying mechanism for such flood amplification may occur in >80% of fine-grained rivers, and suggest the need to reconsider flood control strategies in such rivers worldwide.

First source-to-sink monitoring shows dense head controls sediment flux and runout in turbidity currents.

Until recently, despite being one of the most important sediment transport phenomena on Earth, few direct measurements of turbidity currents existed. Consequently, their structure and evolution were poorly understood, particularly whether they are dense or dilute. Here, we analyze the largest number of turbidity currents monitored to date from source to sink. We show sediment transport and internal flow characteristic evolution as they runout. Observed frontal regions (heads) are fast (>1.5 m/s), thin (<10 m), dense (depth averaged concentrations up to 38%vol), strongly stratified, and dominated by grain-to-grain interactions, or slower (<1 m/s), dilute (<0.01%vol), and well mixed with turbulence supporting sediment. Between these end-members, a transitional flow head exists. Flow bodies are typically thick, slow, dilute, and well mixed. Flows with dense heads stretch and bulk up with dense heads transporting up to 1000 times more sediment than the dilute body. Dense heads can therefore control turbidity current sediment transport and runout into the deep sea.

Groundwater-surface water interactions and flux of organic matter and nutrients in an urban, Mediterranean stream.

The chemical quality of dissolved organic matter (DOM) and the speciation of nitrogen exported from urban catchments is of great importance to biogeochemical cycling in riverine and coastal receiving waters. Many urban streams in Mediterranean climates have a flashy hydrologic regime, which would suggest a rapid pulsing and shunting of solutes downstream. However, the role of these systems both as passive pipes for solute transport or as reactors for DOM and nutrient transformation is still an open question for urban, Mediterranean streams. To address this question, we evaluated changes in concentrations of inorganic and organic solutes and DOM optical properties in Alvarado Creek, a perennially-flowing, urban, first-order tributary of the San Diego River in San Diego, CA, USA, during dry weather (baseflow) conditions and during four storm events in 2016-2018. Chloride and sulfate concentrations corroborate the supposed saline groundwater supply that maintains perennial flow and brackish nature in this urban stream. During dry weather, high proportions of protein-like fluorescent component (AC4) and downstream decreases in total dissolved nitrogen (TDN) and nitrate imply in-stream processing (nitrification and denitrification). By contrast, storm hysteresis curves indicate that the supply of DOM and TDN was not exhausted over the duration of a storm event, whereas nitrate was eventually depleted, presumably because nitrification could not keep up with the export of nitrate from source areas. Rapid decreases in chloride during the storm hydrograph coincided with a shift in specific ultraviolet absorbance (SUVA) and fluorescence index (FI) to more terrestrially-derived and aromatic carbon sources, most likely from interflow of stormwater through vadose zone soils. On an annual basis, the export of microbially-derived DOM during dry weather was higher than the export of terrestrially-derived DOM during storm events; both represent important carbon inputs to coastal waters.

Comparative assessment of marine weathering of ROP-derived biopolymers against conventional plastics.

Bio-based plastics were designed to replace single-use plastics and to cause less post-consumer environmental damage. This paper assesses the weathering of four bio-based polymers created by ring opening polymerization (ROP) promoted by a previously reported Ti-based catalyst, to detect any problems before production was scaled up. Samples were aged in seawater to identify degradation products and monitor structural changes. Surfaces evidenced degradation and a range of leaching products was observed. Aside from compounds used in the preparation of the plastics (i.e. residual monomers and benzyl alcohol), the degradation products included carboxylic acids (often found in plastic leachate), oxacyclohexadecan-2-one (potentially toxic to aquatic life) and triphenylmethane (potential carcinogen). Overall, there were fewer structural changes in the fossil fuel based polymer (PS) and in the commercially available bio-based plastic studied for comparison purposes than the lab based bio-based polymers.

Impact of dams and climate change on suspended sediment flux to the Mekong delta.

The livelihoods of millions of people living in the world's deltas are deeply interconnected with the sediment dynamics of these deltas. In particular a sustainable supply of fluvial sediments from upstream is critical for ensuring the fertility of delta soils and for promoting sediment deposition that can offset rising sea levels. Yet, in many large river catchments this supply of sediment is being threatened by the planned construction of large dams. In this study, we apply the INCA hydrological and sediment model to the Mekong River catchment in South East Asia. The aim is to assess the impact of several large dams (both existing and planned) on the suspended sediment fluxes of the river. We force the INCA model with a climate model to assess the interplay of changing climate and sediment trapping caused by dam construction. The results show that historical sediment flux declines are mostly caused by dams built in PR China and that sediment trapping will increase in the future due to the construction of new dams in PDR Lao and Cambodia. If all dams that are currently planned for the next two decades are built, they will induce a decline of suspended sediment flux of 50% (47-53% 90% confidence interval (90%CI)) compared to current levels (99 Mt/year at the delta apex), with potentially damaging consequences for local livelihoods and ecosystems.

Author Correction: Rapidly-migrating and internally-generated knickpoints can control submarine channel evolution.

An amendment to this paper has been published and can be accessed via a link at the top of the paper.

A bedform phase diagram for dense granular currents.

Pyroclastic density currents (PDCs) are a life-threatening volcanic hazard. Our understanding and hazard assessments of these flows rely on interpretations of their deposits. The occurrence of stratified layers, cross-stratification, and bedforms in these deposits has been assumed as indicative of dilute, turbulent, supercritical flows causing traction-dominated deposition. Here we show, through analogue experiments, that a variety of bedforms can be produced by denser, aerated, granular currents, including backset bedforms that are formed in waning flows by an upstream-propagating granular bore. We are able to, for the first time, define phase fields for the formation of bedforms in PDC deposits. We examine how our findings impact the understanding of bedform features in outcrop, using the example of the Pozzolane Rosse ignimbrite of the Colli Albani volcano, Italy, and thus highlight that interpretations of the formative mechanisms of these features observed in the field must be reconsidered.

Rapidly-migrating and internally-generated knickpoints can control submarine channel evolution.

Submarine channels are the primary conduits for terrestrial sediment, organic carbon, and pollutant transport to the deep sea. Submarine channels are far more difficult to monitor than rivers, and thus less well understood. Here we present 9 years of time-lapse mapping of an active submarine channel along its full length in Bute Inlet, Canada. Past studies suggested that meander-bend migration, levee-deposition, or migration of (supercritical-flow) bedforms controls the evolution of submarine channels. We show for the first time how rapid (100-450 m/year) upstream migration of 5-to-30 m high knickpoints can control submarine channel evolution. Knickpoint migration-related changes include deep (>25 m) erosion, and lateral migration of the channel. Knickpoints in rivers are created by external factors, such as tectonics, or base-level change. However, the knickpoints in Bute Inlet appear internally generated. Similar knickpoints are found in several submarine channels worldwide, and are thus globally important for how channels operate.

Influence of light and temperature cycles on the expression of circadian clock genes in the mussel Mytilus edulis.

Clock genes and environmental cues regulate essential biological rhythms. The blue mussel, Mytilus edulis, is an ecologically and economically important intertidal bivalve undergoing seasonal reproductive rhythms. We previously identified seasonal expression differences in M. edulis clock genes. Herein, the effects of light/dark cycles, constant darkness, and daily temperature cycles on the circadian expression patterns of such genes are characterised. Clock genes Clk, Cry1, ROR/HR3, Per and Rev-erb/NR1D1, and Timeout-like, show significant mRNA expression variation, persisting in darkness indicating endogenous control. Rhythmic expression was apparent under diurnal temperature cycles in darkness for all except Rev-erb. Temperature cycles induced a significant expression difference in the non-circadian clock-associated gene aaNAT. Furthermore, Suppression Subtractive Hybridisation (SSH) was used to identify seasonal genes with potential links to molecular clock function and revealed numerous genes meriting further investigation. Understanding the relationship between environmental cues and molecular clocks is crucial in predicting the outcomes of environmental change on fundamental rhythmic processes.

Sn6SiO8, a Tin(II) Silicate with a Zinc Blende Related Structure and High Thermal Stability.

The crystal structure of a novel cubic tin(II) silicate, Sn6SiO8 (space group F4̅3m, a = 10.40708(2) Å, and Z = 4), synthesized by microwave-assisted hydrothermal synthesis has been solved by Rietveld refinement of the powder X-ray diffraction (PXRD) data. The structure, analogous to zinc blende, comprises a face-centered-cubic array of [Sn6O8]4- anions, with Si4+ occupying half of the tetrahedral holes. The tin(II) silicate has been further characterized by variable-temperature PXRD, demonstrating stability of the structure and resistance to SnII oxidation up to ∼600 °C, when the compound begins to thermally decompose.

Integrating field and laboratory approaches for ripple development in mixed sand-clay-EPS.

The shape and size of sedimentary bedforms play a key role in the reconstruction of sedimentary processes in modern and ancient environments. Recent laboratory experiments have shown that bedforms in mixed sand-clay develop at a slower rate and often have smaller heights and wavelengths than equivalent bedforms in pure sand. This effect is generally attributed to cohesive forces that can be of physical origin, caused by electrostatic forces of attraction between clay minerals, and of biological origin, caused by 'sticky' extracellular polymeric substances (EPS) produced by micro-organisms, such as microalgae (microphytobenthos) and bacteria. The present study demonstrates, for the first time, that these laboratory experiments are a suitable analogue for current ripples formed by tidal currents on a natural mixed sand-mud-EPS intertidal flat in a macrotidal estuary. Integrated hydrodynamic and bed morphological measurements, collected during a spring tide under weak wave conditions near Hilbre Island (Dee Estuary, north-west England, UK), reveal a statistically significant decrease in current ripple wavelength for progressively higher bed mud and EPS contents, and a concurrent change from three-dimensional linguoid to two-dimensional straight-crested ripple planform morphology. These results agree well with observations in laboratory flumes, but the rate of decrease of ripple wavelength as mud content increased was found to be substantially greater for the field than the laboratory. Since the formation of ripples under natural conditions is inherently more complex than in the laboratory, four additional factors that might affect current ripple development in estuaries, but which were not accounted for in laboratory experiments, were explored. These were current forcing, clay type, pore water salinity and bed EPS content. These data illustrate that clay type alone cannot explain the difference in the rate of decrease in ripple wavelength, because the bed clay contents were too low for clay type to have had a measurable effect on bedform development. Accounting for the difference in current forcing between the field and experiments, and therefore the relative stage of development with respect to equilibrium ripples, increases the difference between the ripple wavelengths. The presence of strongly cohesive EPS in the current ripples on the natural intertidal flat might explain the majority of the difference in the rate of decrease in ripple wavelength between the field and the laboratory. The effect of pore water salinity on the rate of bedform development cannot be quantified at present, but salinity is postulated herein to have had a smaller influence on the ripple wavelength than bed EPS content. The common presence of clay and EPS in many aqueous sedimentary environments implies that a re-assessment of the role of current ripples and their primary current lamination in predicting and reconstructing flow regimes is necessary, and that models that are valid for pure sand are an inappropriate descriptor for more complex mixed sediment. This study proposes that this re-assessment is necessary at all bed clay contents above 3%.

Direct Monitoring Reveals Initiation of Turbidity Currents From Extremely Dilute River Plumes.

Rivers (on land) and turbidity currents (in the ocean) are the most important sediment transport processes on Earth. Yet how rivers generate turbidity currents as they enter the coastal ocean remains poorly understood. The current paradigm, based on laboratory experiments, is that turbidity currents are triggered when river plumes exceed a threshold sediment concentration of ~1 kg/m3. Here we present direct observations of an exceptionally dilute river plume, with sediment concentrations 1 order of magnitude below this threshold (0.07 kg/m3), which generated a fast (1.5 m/s), erosive, short-lived (6 min) turbidity current. However, no turbidity current occurred during subsequent river plumes. We infer that turbidity currents are generated when fine sediment, accumulating in a tidal turbidity maximum, is released during spring tide. This means that very dilute river plumes can generate turbidity currents more frequently and in a wider range of locations than previously thought.

Powerful turbidity currents driven by dense basal layers.

Seafloor sediment flows (turbidity currents) are among the volumetrically most important yet least documented sediment transport processes on Earth. A scarcity of direct observations means that basic characteristics, such as whether flows are entirely dilute or driven by a dense basal layer, remain equivocal. Here we present the most detailed direct observations yet from oceanic turbidity currents. These powerful events in Monterey Canyon have frontal speeds of up to 7.2 m s-1, and carry heavy (800 kg) objects at speeds of ≥4 m s-1. We infer they consist of fast and dense near-bed layers, caused by remobilization of the seafloor, overlain by dilute clouds that outrun the dense layer. Seabed remobilization probably results from disturbance and liquefaction of loose-packed canyon-floor sand. Surprisingly, not all flows correlate with major perturbations such as storms, floods or earthquakes. We therefore provide a new view of sediment transport through submarine canyons into the deep-sea.