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"Wood, Stephen"
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Pseudomonas aeruginosa: Infections, Animal Modeling, and Therapeutics
Pseudomonas aeruginosa is an important Gram-negative opportunistic pathogen which causes many severe acute and chronic infections with high morbidity, and mortality rates as high as 40%. What makes P. aeruginosa a particularly challenging pathogen is its high intrinsic and acquired resistance to many of the available antibiotics. In this review, we review the important acute and chronic infections caused by this pathogen. We next discuss various animal models which have been developed to evaluate P. aeruginosa pathogenesis and assess therapeutics against this pathogen. Next, we review current treatments (antibiotics and vaccines) and provide an overview of their efficacies and their limitations. Finally, we highlight exciting literature on novel antibiotic-free strategies to control P. aeruginosa infections.
Journal Article
Global meta-analysis of the relationship between soil organic matter and crop yields
Resilient, productive soils are necessary to sustainably intensify agriculture to increase yields while minimizing environmental harm. To conserve and regenerate productive soils, the need to maintain and build soil organic matter (SOM) has received considerable attention. Although SOM is considered key to soil health, its relationship with yield is contested because of local-scale differences in soils, climate, and farming systems. There is a need to quantify this relationship to set a general framework for how soil management could potentially contribute to the goals of sustainable intensification. We developed a quantitative model exploring how SOM relates to crop yield potential of maize and wheat in light of co-varying factors of management, soil type, and climate. We found that yields of these two crops are on average greater with higher concentrations of SOC (soil organic carbon). However, yield increases level off at ∼2 % SOC. Nevertheless, approximately two-thirds of the world's cultivated maize and wheat lands currently have SOC contents of less than 2 %. Using this regression relationship developed from published empirical data, we then estimated how an increase in SOC concentrations up to regionally specific targets could potentially help reduce reliance on nitrogen (N) fertilizer and help close global yield gaps. Potential N fertilizer reductions associated with increasing SOC amount to 7 % and 5 % of global N fertilizer inputs across maize and wheat fields, respectively. Potential yield increases of 10±11 % (mean ± SD) for maize and 23±37 % for wheat amount to 32 % of the projected yield gap for maize and 60 % of that for wheat. Our analysis provides a global-level prediction for relating SOC to crop yields. Further work employing similar approaches to regional and local data, coupled with experimental work to disentangle causative effects of SOC on yield and vice versa, is needed to provide practical prescriptions to incentivize soil management for sustainable intensification.
Journal Article
Risk Perception and Risk-Taking Behaviour during Adolescence: The Influence of Personality and Gender
This study investigated the influence of personality characteristics and gender on adolescents' perception of risk and their risk-taking behaviour. Male and female participants (157 females: 116 males, aged 13-20) completed self-report measures on risk perception, risk-taking and personality. Male participants perceived behaviours as less risky, reportedly took more risks, were less sensitive to negative outcomes and less socially anxious than female participants. Path analysis identified a model in which age, behavioural inhibition and impulsiveness directly influenced risk perception, while age, social anxiety, impulsiveness, sensitivity to reward, behavioural inhibition and risk perception itself were directly or indirectly associated with risk-taking behaviour. Age and behavioural inhibition had direct relationships with social anxiety, and reward sensitivity was associated with impulsiveness. The model was representative for the whole sample and male and female groups separately. The observed relationship between age and social anxiety and the influence this may have on risk-taking behaviour could be key for reducing adolescent risk-taking behaviour. Even though adolescents may understand the riskiness of their behaviour and estimate their vulnerability to risk at a similar level to adults, factors such as anxiety regarding social situations, sensitivity to reward and impulsiveness may exert their influence and make these individuals prone to taking risks. If these associations are proven causal, these factors are, and will continue to be, important targets in prevention and intervention efforts.
Journal Article
Urinary prostaglandin metabolites as biomarkers for human labour: Insights into future predictors
Prostaglandins and other related molecules in the eicosanoid family have long been implicated in the process of both term and preterm labour. Although, exactly which eicosanoids are involved and whether they have utility as biomarkers for labour, remains to be shown. The objective of this study was to determine whether urinary prostaglandins and related molecules a) change with labour and/or cervical changes, at term and preterm, and/or b) are associated with timing of delivery in individuals with threatened preterm labour. Pregnant individuals were recruited into the following groups: n = 32 term non-labour, n = 49 term labour, n = 15 preterm non-labour controls, n = 43 threatened preterm labour with preterm delivery, and n = 44 threatened preterm labour with term delivery. Metabolites of prostaglandins PGE 2 , PGF 2α , PGD 2 , and PGI 2 as well as 8-isoprostane were measured by ELISA. In addition, in a small (n = 24) subset of samples, 147 eicosanoids were measured using a mass-spectrometry based targeted lipidomics panel. At term labour prostaglandin PGF 2α and PGE 2 and PGF 2α metabolites were increased compared to term non-labour. There were no changes in any prostaglandin metabolites prior to labour onset. Prostaglandin I 2 metabolite was lower in individuals with threatened preterm labour who delivered preterm compared to those who went on to deliver at term. In our discovery cohort, we identified 20 additional eicosanoids as highly expressed in maternal urine, include members of the prostaglandin, hydroxyeicosatetraenoic acid (HETE), epoxyeicosatrienoic acid (EET), dihydroxy-octadecenoic acid (DiHOME), dihydroxy-eicosatrienoic acid (diHETrE), isoprostane, and nitro fatty acid eicosanoid families. In conclusion, we did not identify any prostaglandins that would have utility as predictors for term or preterm labour, however, we have identified diverse eicosanoids that have not been previously explored in the context of pregnancy and labour, highlighting novel areas for biomarker research.
Journal Article
Understanding the dominant controls on litter decomposition
Litter decomposition is a biogeochemical process fundamental to element cycling within ecosystems, influencing plant productivity, species composition and carbon storage. Climate has long been considered the primary broad‐scale control on litter decomposition rates, yet recent work suggests that plant litter traits may predominate. Both decomposition paradigms, however, rely on inferences from cross‐biome litter decomposition studies that analyse site‐level means. We re‐analyse data from a classical cross‐biome study to demonstrate that previous research may falsely inflate the regulatory role of climate on decomposition and mask the influence of unmeasured local‐scale factors. Using the re‐analysis as a platform, we advocate experimental designs of litter decomposition studies that involve high within‐site replication, measurements of regulatory factors and processes at the same local spatial grain, analysis of individual observations and biome‐scale gradients. Synthesis. We question the assumption that climate is the predominant regulator of decomposition rates at broad spatial scales. We propose a framework for a new generation of studies focused on factoring local‐scale variation into the measurement and analysis of soil processes across broad scales. Such efforts may suggest a revised decomposition paradigm and ultimately improve confidence in the structure, parameter estimates and hence projections of biogeochemical models.
Journal Article
Soil organic matter protects US maize yields and lowers crop insurance payouts under drought
Higher levels of soil organic matter improve soil water retention, meaning they could mitigate agricultural yield losses from drought. Yet evidence to support such claims is mixed and incomplete. Using data from 12 376 county-years in the United States of America, we show that counties with higher soil organic matter are associated with greater yields, lower yield losses, and lower rates of crop insurance payouts under drought. Under severe drought, an increase of 1% soil organic matter was associated with a yield increase of 2.2 ± 0.33 Mg ha −1 (32.7 bu ac −1 ) and a 36 ± 4.76% reduction in the mean proportion of liabilities paid. Similar, yet smaller, effects were found for less severe levels of drought and this effect was reduced as soil clay content increased. Confirmatory pathway analyses indicate that this positive association of soil organic matter and yields under drought is partially explained by positive effects of soil organic matter on available water capacity and cation exchange capacity, but that soil organic matter may be imparting yield protection via mechanisms not fully captured by those metrics. Overall, our results suggest soil organic matter predicts yield resilience at regional scales in the United States. We argue that data on soil organic matter should be used in agricultural policy and financial planning, with our analyses providing quantitative evidence of the co-benefits of soil organic matter believed fundamental to advancing soil health and carbon sequestration initiatives.
Journal Article
La FAM fatale: USP9X in development and disease
Deubiquitylating enzymes (DUBs), act downstream of ubiquitylation. As such, these post-post-translational modifiers function as the final arbitrators of a protein substrate’s ubiquitylation status, thus regulating its fate. In most instances, DUBs moderate the absolute level of a substrate, its locality or activity, rather than being an “all-or-none” phenomenon. Yet, disruption of this quantitative regulation can produce dramatic qualitative differences. The ubiquitin-specific protease 9X (USP9X/FAM) is a substrate-specific DUB, which displays an extraordinarily high level of sequence conservation from
Drosophila
to mammals. It is primarily the recent revelations of USP9X’s pivotal role in human cancers, both as oncogene or tumour suppressor, in developmental disorders including intellectual disability, epilepsy, autism and developmental delay that has led to a subsequent re-examination of its molecular and cellular functions. Results from experimental animal models have implicated USP9X in neurodegeneration, including Parkinson’s and Alzheimer’s disease, as well as autoimmune diseases. In this review, we describe the current and accumulated knowledge on the molecular, cellular and developmental aspects of USP9X function within the context of the biological consequences during normal development and disease.
Journal Article
Is voluntary certification of tropical agricultural commodities achieving sustainability goals for small-scale producers? A review of the evidence
Over the last several decades, voluntary certification programs have become a key approach to promote sustainable supply chains for agricultural commodities. These programs provide premiums and other benefits to producers for adhering to environmental and labor practices established by the certifying entities. Following the principles of Cochrane Reviews used in health sciences, we assess evidence to evaluate whether voluntary certification of tropical agricultural commodities (bananas, cocoa, coffee, oil palm, and tea) has achieved environmental benefits and improved economic and social outcomes for small-scale producers at the level of the farm household. We reviewed over 2600 papers in the peer-review literature and identified 24 cases of unique combinations of study area, certification program, and commodity in 16 papers that rigorously analyzed differences between treatment (certified households) and control groups (uncertified households) for a wide range of response variables. Based on analysis of 347 response variables reported in these papers, we conclude that certification is associated on average with positive outcomes for 34% of response variables, no significant difference for 58% of variables, and negative outcomes for 8% of variables. No significant differences were observed for different categories of responses (environmental, economic and social) or for different commodities (banana, coffee and tea), except negative outcomes were significantly less for environmental than other outcome categories (p = 0.01). Most cases (20 out of 24) investigated coffee certification and response variables were inconsistent across cases, indicating the paucity of studies to conduct a conclusive meta-analysis. The somewhat positive results indicate that voluntary certification programs can sometimes play a role in meeting sustainable development goals and do not support the view that such programs are merely greenwashing. However, results also indicate that certification is not a panacea to improve social outcomes or overall incomes of smallholder farmers. Rigorous analysis, standardized criteria, and independent evaluation are needed to assess effectiveness of certification programs in the future.
Journal Article
