What’s really damaging the Reef?: Tracing the origin and fate of the ecologically detrimental sediment and associated bioavailable nutrients

This report addresses six key systematic questions to help inform the debate on the influence of anthropogenic sediment and associated particulate nutrients delivered to the Great Barrier Reef (GBR) lagoon. They are: 1. What is the influence of the newly-delivered sediment (i.e. from flood plumes) on turbidity regimes at coral reef and seagrass locations of the inshore GBR? 2. What is the contribution of the anthropogenic component of this sediment on turbidity regimes? 3. What are the characteristics of the suspended particulate matter (and associated particulate nutrients) that influence light and turbidity regimes and how do these change over the estuarine mixing gradient of flood plumes? 4. How does the particulate organic component of the suspended particulate matter and associated microbial community composition change from the catchment to reef? 5. How bioavailable is the suspended particulate matter along the estuarine mixing gradient 6. Where does the sediment (and associated particulate nutrients) that influence light and turbidity regimes in the GBR come from in the Burdekin catchment so that management efforts can be prioritised? This final project report is divided into eight separate stand-alone research chapters which collectively address these six key questions

Sediment tracing from the catchment to reef 2016 to 2018: Flood plume, marine sediment trap and logger data time series

The sediment dynamics at marine sites in the inshore GBRL region likely fall into three separate categories including sites where: 1. input of new terrigenous sediments have by far the greatest influence on sediment exposure and subsequent resuspension (e.g. Dunk Island, Orpheus Island, Havannah Island, Cleveland Bay?); 2. input of new terrigenous sediments are at least equivalent to resuspension events which likely increases upon larger river discharge events (e.g. Cleveland Bay?, Orchard Rocks). 3. input of new terrigenous sediments are less than or equal to common resuspension events (e.g. Middle Reef, Geoffrey Bay). This provides some of the first empirical data to support the findings of the satellite photic depth modelling of Fabricius et al. (2014, 2016) where the delivery of new terrigenous sediment considerably influences water clarity on the inshore Great Barrier Reef

Thermoluminescence of zircon: a kinetic model

The mineral zircon, ZrSiO4, belongs to a class of promising materials for geochronometry by means of thermoluminescence (TL) dating. The development of a reliable and reproducible method for TL dating with zircon requires detailed knowledge of the processes taking place during exposure to ionizing radiation, long-term storage, annealing at moderate temperatures and heating at a constant rate (TL measurements). To understand these processes one needs a kinetic model of TL. This paper is devoted to the construction of such amodel. The goal is to study the qualitative behaviour of the system and to determine the parameters and processes controlling TL phenomena of zircon. The model considers the following processes: (i) Filling of electron and hole traps at the excitation stage as a function of the dose rate and the dose for both (low dose rate) natural and (high dose rate) laboratory irradiation. (ii) Time dependence of TL fading in samples irradiated under laboratory conditions. (iii) Short time annealing at a given temperature. (iv) Heating of the irradiated sample to simulate TL experiments both after laboratory and natural irradiation. The input parameters of the model, such as the types and concentrations of the TL centres and the energy distributions of the hole and electron traps, were obtained by analysing the experimental data on fading of the TL-emission spectra of samples from different geological locations. Electron paramagnetic resonance (EPR) data were used to establish the nature of the TL centres. Glow curves and 3D TL emission spectra are simulated and compared with the experimental data on time-dependent TL fading. The saturation and annealing behaviour of filled trap concentrations has been considered in the framework of the proposed kinetic model and comparedwith the EPR data associated with the rare-earth ions Tb3+ and Dy3+, which play a crucial role as hole traps and recombination centres. Inaddition, the behaviour of some of the SiOmn− centres has been compared with simulation results.

Quantitative microbiology: a basis for food safety.

Because microorganisms are easily dispersed, display physiologic diversity, and tolerate extreme conditions, they are ubiquitous and may contaminate and grow in many food products. The behavior of microbial populations in foods (growth, survival, or death) is determined by the properties of the food (e.g., water activity and pH) and the storage conditions (e.g., temperature, relative humidity, and atmosphere). The effect of these properties can be predicted by mathematical models derived from quantitative studies on microbial populations. Temperature abuse is a major factor contributing to foodborne disease; monitoring temperature history during food processing, distribution, and storage is a simple, effective means to reduce the incidence of food poisoning. Interpretation of temperature profiles by computer programs based on predictive models allows informed decisions on the shelf life and safety of foods. In- or on-package temperature indicators require further development to accurately predict microbial behavior. We suggest a basis for a "universal" temperature indicator. This article emphasizes the need to combine kinetic and probability approaches to modeling and suggests a method to define the bacterial growth/no growth interface. Advances in controlling foodborne pathogens depend on understanding the pathogens' physiologic responses to growth constraints, including constraints conferring increased survival capacity

Phosphorus in the landscape: diffuse sources to surface waters. Land and Water Resources Research and Development Corporation. Occasional Paper 16/98

The National Eutrophication Management Program (NEMP) and Environment Australia convened a workshop to develop a coherent overview of the sources and transport of diffuse phosphorus in Australian catchments based on the latest knowledge. The Land and Water Resources Research and Development Corporation (LWRRDC) and the Murray–Darling Basin Commission (MDBC) jointly fund NEMP. A select group of scientists attended the workshop and developed a coherent statement about phosphorus sources and transport in Australian catchments. The group did not extend this statement to include recommended management practices. This paper reports the findings from the workshop. State governments have developed algal and nutrient management strategies in response to concerns about the frequency and severity of algal blooms, including cyanobacterial blooms, in Australian rivers and estuaries. There is an emphasis on phosphorus management, particularly in rural environments, now that nutrients are recognised as fundamental drivers of algal growth. Best management practices (BMPs) were developed for these strategies on the basis of the limited scientific evidence that was available at the time. The absence of a significant body of Australian information meant that there was a reliance on overseas research findings to develop such BMPs. A number of research projects have been completed in recent years on the sources and transport of nutrients in Australian catchments that challenge the Northern Hemisphere model of nutrient behaviour and will have implications for future development of BMPs. Principal conclusions 1. The studies presented in the workshop demonstrate that control of phosphorus entering surface waters must start with land management that minimises accelerated erosion and overland flow of water potentially rich in phosphorus. Heavily grazed lands, irrigation areas and intensive animal and horticultural industries are at risk, especially at the onset of rainy seasons and during periods of high rain intensity. 2. The transport of phosphorus from diffuse sources in landscapes can occur in both dissolved and particulate form. This can be due to different mobilisation and delivery mechanisms operating in different environments. Phosphorus mobilisation and delivery 1. Diffuse sources of phosphorus are the dominant component in most Australian catchments. Episodic rainfall is responsible for the bulk of phosphorus loss from the landscape. The mechanisms vary with each catchment. 2. Particulate phosphorus is carried by overland flow, resulting from run-off and erosion. In high to medium rainfall environments most is carried as filterable reactive phosphorus of less than 0.45 microns. Although most of the coarser materials from high parts of the landscape are deposited before they reach a watercourse, the particles ultimately carried into drainage lines are phosphorus-enriched by processes of sorting and filtration. 3. In river systems studied in the Murray–Darling Basin river sediments that originate from gully erosion and stream-bank collapse of readily dispersible soils carry most of the diffuse-source phosphorus. It is very likely that most of the phosphorus on these sediments is ‘native’ phosphorus coming from subsoils. 2 Phosphorus in the landscape: diffuse sources to surface waters Although the major episodes of gully formation occurred several decades ago, inputs of sediments and phosphorus from these sources continue at a high rate. Reduced input rates can best be achieved by targeting the gullies themselves and stabilising them by conservation works—particularly in small headwater catchments. 4. In larger dry-land catchments, fertiliser phosphorus is generally not an important component of phosphorus loss/export, although it may be locally significant. 5. Local soil, vegetation, terrain and climate conditions dictate whether surface erosion is the dominant source of phosphorus into a watercourse. To describe phosphorus exports from a specific landscape by surface erosion requires local studies. However, guidelines can be developed for management purposes to identify and minimise sources of phosphorus carried by overland flow. 6. Potential sources of diffuse phosphorus run-off occur wherever fertilisers are applied to soils that are already wet at the surface, or that may become wet by seasonally emerging groundwater. The magnitude of the loss will be greater if the application occurs on bare soils, or if it is next to a waterbody. 7. Dissolved phosphorus (from fertilisers and other sources) is readily mobilised and transported directly where the soil has both little ability to bind the phosphorus and a high leaching rate, as occurs in sandy regions of high rainfall around the continent. Phosphorus-laden water then travels via overland or shallow sub-surface flow to surface waterbodies quite quickly, unless other processes impede the movement. If the dissolved phosphorus moves via deep groundwater the time scales for its reappearance in surface water are generally large. 8. Dissolved phosphorus may also enter tributary waterbodies in headwater catchments via shortcircuit pathways, such as macropores, but this is only likely to be important over distances of hundreds of metres. However, these sub-surface pathways may reduce the effectiveness of local management practices that do not take them into account. 9. Large amounts of dissolved phosphorus are also being produced from irrigated dairy pastures (and possibly from other irrigation enterprises also). There is little or no sub-surface movement because soils are generally high in clay and flat. Phosphorus-laden water is pumped or drained across the land surface to channels. The time scale of dissolved phosphorus movement is comparable with the time with which the water itself moves. Once within drainage channels and streambeds the dissolved phosphorus fraction may be partially re-adsorbed onto particulates. 10. Large quantities of dissolved phosphorus are found in surface waters next to areas where animal excreta or over-fertilised market gardens give rise to phosphorus in surface wastewater that flows directly into waterways. These situations are most likely to arise in catchments that contain mixtures of horticultural, dairying, hobby-farming and similar land uses. Where farm dams are abundant a significant fraction of this phosphorus will not enter streams but will be retarded or retained in the landscape

The effect of draw ratio on the mechanical properties and crystalline structure of single polymer polypropylene composites

The properties of self-reinforced single polymer composites produced by the Leeds hot compaction process are highly dependent on the compaction temperature as well as the constituent oriented elements used to produce the compacted sheets. In this paper, the variation in tensile mechanical properties of uniaxial hot compacted sheets manufactured from drawn polypropylene (PP) tapes with change in compaction temperature have been investigated, for a range of different draw ratio tapes. It is shown that there is a measureable difference between the optimum compaction temperatures required for obtaining the highest modulus and strength in the compacted sheets. The compaction temperature required to achieve the maximum tensile modulus was seen to increase with increasing draw ratio. The compaction temperature to obtain the maximum tensile strength was found to be both independent of the draw ratio and a few degrees higher than that for obtaining the maximum modulus. Peak modulus and peak tensile strength was shown to be dependent on the draw ratio of the drawn tape. Differential scanning calorimetry measurements on the compacted sheets were also performed in order to investigate the change in crystalline structure with compaction temperature and draw ratio. This has shown that the changes in structure within the oriented phase (i.e. tapes) during the compaction process itself are directly related to the final properties of the hot compacted sheets

The Human Disease Ontology 2022 update.

The Human Disease Ontology (DO) (www.disease-ontology.org) database, has significantly expanded the disease content and enhanced our userbase and website since the DO\u27s 2018 Nucleic Acids Research DATABASE issue paper. Conservatively, based on available resource statistics, terms from the DO have been annotated to over 1.5 million biomedical data elements and citations, a 10× increase in the past 5 years. The DO, funded as a NHGRI Genomic Resource, plays a key role in disease knowledge organization, representation, and standardization, serving as a reference framework for multiscale biomedical data integration and analysis across thousands of clinical, biomedical and computational research projects and genomic resources around the world. This update reports on the addition of 1,793 new disease terms, a 14% increase of textual definitions and the integration of 22 137 new SubClassOf axioms defining disease to disease connections representing the DO\u27s complex disease classification. The DO\u27s updated website provides multifaceted etiology searching, enhanced documentation and educational resources

Regional foreign direct investment and wage spillovers:plant level evidence from the UK electronics industry

This paper examines the extent to which foreign investment in the UK generates wage spillovers in the domestic sector of the economy using a simultaneous dynamic panel data model and focusing on the electronics sector, possibly the most ‘globalized’ sector of UK manufacturing. It finds evidence that the higher wages paid by foreign firms cause wages in the domestic sector to be bid up. This phenomenon is, however, largely confined to the region where foreign direct investment takes place

The DO-KB Knowledgebase: a 20-year journey developing the disease open science ecosystem.

In 2003, the Human Disease Ontology (DO, https://disease-ontology.org/) was established at Northwestern University. In the intervening 20 years, the DO has expanded to become a highly-utilized disease knowledge resource. Serving as the nomenclature and classification standard for human diseases, the DO provides a stable, etiology-based structure integrating mechanistic drivers of human disease. Over the past two decades the DO has grown from a collection of clinical vocabularies, into an expertly curated semantic resource of over 11300 common and rare diseases linking disease concepts through more than 37000 vocabulary cross mappings (v2023-08-08). Here, we introduce the recently launched DO Knowledgebase (DO-KB), which expands the DO\u27s representation of the diseaseome and enhances the findability, accessibility, interoperability and reusability (FAIR) of disease data through a new SPARQL service and new Faceted Search Interface. The DO-KB is an integrated data system, built upon the DO\u27s semantic disease knowledge backbone, with resources that expose and connect the DO\u27s semantic knowledge with disease-related data across Open Linked Data resources. This update includes descriptions of efforts to assess the DO\u27s global impact and improvements to data quality and content, with emphasis on changes in the last two years

Characteristics associated with quality of life among people with drug-resistant epilepsy

Quality of Life (QoL) is the preferred outcome in non-pharmacological trials, but there is little UK population evidence of QoL in epilepsy. In advance of evaluating an epilepsy self-management course we aimed to describe, among UK participants, what clinical and psycho-social characteristics are associated with QoL. We recruited 404 adults attending specialist clinics, with at least two seizures in the prior year and measured their self-reported seizure frequency, co-morbidity, psychological distress, social characteristics, including self-mastery and stigma, and epilepsy-specific QoL (QOLIE-31-P). Mean age was 42 years, 54% were female, and 75% white. Median time since diagnosis was 18 years, and 69% experienced ≥10 seizures in the prior year. Nearly half (46%) reported additional medical or psychiatric conditions, 54% reported current anxiety and 28% reported current depression symptoms at borderline or case level, with 63% reporting felt stigma. While a maximum QOLIE-31-P score is 100, participants’ mean score was 66, with a wide range (25–99). In order of large to small magnitude: depression, low self-mastery, anxiety, felt stigma, a history of medical and psychiatric comorbidity, low self-reported medication adherence, and greater seizure frequency were associated with low QOLIE-31-P scores. Despite specialist care, UK people with epilepsy and persistent seizures experience low QoL. If QoL is the main outcome in epilepsy trials, developing and evaluating ways to reduce psychological and social disadvantage are likely to be of primary importance. Educational courses may not change QoL, but be one component supporting self-management for people with long-term conditions, like epilepsy