Land management for increased flood resilience

Natural Flood Management (NFM) (e.g. restoring watercourses, riparian tree planting, washland and wetland creation) is a core component of flood risk management strategies in Scotland. However little is known of its potential impact on the farming and land management communities, individual farm businesses, or the socioeconomic impacts and perceptions of its potential wide-spread introduction. To support policy implementation, information is required on land managers’ willingness to implement NFM, and to be able to relate willingness to generic farm characteristics (farming systems, land use types, geographical location), different types and locations of NFM measures, and to farm economics.The main objectives of the project are to undertake:1. A large scale survey of farmers’ attitudes to NFM and to the use of potential policy instruments to promote its uptake and delivery; and2. Farm-scale economic analyses of the impact of NFM measures under different scenarios

MAPT Genetic Variation and Neuronal Maturity Alter Isoform Expression Affecting Axonal Transport in iPSC-Derived Dopamine Neurons

The H1 haplotype of the microtubule-associated protein tau (MAPT) locus is genetically associated with neurodegenerative diseases, including Parkinson's disease (PD), and affects gene expression and splicing. However, the functional impact on neurons of such expression differences has yet to be fully elucidated. Here, we employ extended maturation phases during differentiation of induced pluripotent stem cells (iPSCs) into mature dopaminergic neuronal cultures to obtain cultures expressing all six adult tau protein isoforms. After 6 months of maturation, levels of exon 3+ and exon 10+ transcripts approach those of adult brain. Mature dopaminergic neuronal cultures display haplotype differences in expression, with H1 expressing 22% higher levels of MAPT transcripts than H2 and H2 expressing 2-fold greater exon 3+ transcripts than H1. Furthermore, knocking down adult tau protein variants alters axonal transport velocities in mature iPSC-derived dopaminergic neuronal cultures. This work links haplotype-specific MAPT expression with a biologically functional outcome relevant for PD

Author Correction: A consensus-based transparency checklist.

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

Emulation and Sensitivity Analysis of the Community Multiscale Air Quality Model for a UK Ozone Pollution Episode

Gaussian process emulation techniques have been used with the Community Multiscale Air Quality model, simulating the effects of input uncertainties on ozone and NO2 output, to allow robust global sensitivity analysis (SA). A screening process ranked the effect of perturbations in 223 inputs, isolating the 30 most influential from emissions, boundary conditions (BCs), and reaction rates. Community Multiscale Air Quality (CMAQ) simulations of a July 2006 ozone pollution episode in the UK were made with input values for these variables plus ozone dry deposition velocity chosen according to a 576 point Latin hypercube design. Emulators trained on the output of these runs were used in variance-based SA of the model output to input uncertainties. Performing these analyses for every hour of a 21 day period spanning the episode and several days on either side allowed the results to be presented as a time series of sensitivity coefficients, showing how the influence of different input uncertainties changed during the episode. This is one of the most complex models to which these methods have been applied, and here, they reveal detailed spatiotemporal patterns of model sensitivities, with NO and isoprene emissions, NO2 photolysis, ozone BCs, and deposition velocity being among the most influential input uncertainties

Land management for increased flood resilience

Natural Flood Management (NFM) (e.g. restoring watercourses, riparian tree planting, washland and wetland creation) is a core component of flood risk management strategies in Scotland. However little is known of its potential impact on the farming and land management communities, individual farm businesses, or the socioeconomic impacts and perceptions of its potential wide-spread introduction. To support policy implementation, information is required on land managers’ willingness to implement NFM, and to be able to relate willingness to generic farm characteristics (farming systems, land use types, geographical location), different types and locations of NFM measures, and to farm economics.The main objectives of the project are to undertake:1. A large scale survey of farmers’ attitudes to NFM and to the use of potential policy instruments to promote its uptake and delivery; and2. Farm-scale economic analyses of the impact of NFM measures under different scenarios

Peroxisome biogenesis, protein targeting mechanisms and PEX gene functions in plants

Peroxisomes play diverse and important roles in plants. The functions of peroxisomes are dependent upon their steady state protein composition which in turn reflects the balance of formation and turnover of the organelle. Protein import and turnover of constituent peroxisomal proteins is controlled by the state of cell growth and environment. The evolutionary origin of the peroxisome and the role of the endoplasmic reticulum in peroxisome biogenesis is discussed, as informed by studies of the trafficking of peroxisome membrane proteins. The process of matrix protein import in plants and its similarities and differences with peroxisomes in other organisms is presented and discussed in the context of peroxin distribution across the green plants

An Extended Gene Protein/Products Boolean Network Model Including Post-Transcriptional Regulation

Background: Networks Biology allows the study of complex interactions between biological systems using formal, well structured, and computationally friendly models. Several different network models can be created, depending on the type of interactions that need to be investigated. Gene Regulatory Networks (GRN) are an effective model commonly used to study the complex regulatory mechanisms of a cell. Unfortunately, given their intrinsic complexity and non discrete nature, the computational study of realistic-sized complex GRNs requires some abstractions. Boolean Networks (BNs), for example, are a reliable model that can be used to represent networks where the possible state of a node is a boolean value (0 or 1). Despite this strong simplification, BNs have been used to study both structural and dynamic properties of real as well as randomly generated GRNs. Results: In this paper we show how it is possible to include the post-transcriptional regulation mechanism (a key process mediated by small non-coding RNA molecules like the miRNAs) into the BN model of a GRN. The enhanced BN model is implemented in a software toolkit (EBNT) that allows to analyze boolean GRNs from both a structural and a dynamic point of view. The open-source toolkit is compatible with available visualization tools like Cytoscape and allows to run detailed analysis of the network topology as well as of its attractors, trajectories, and state-space. In the paper, a small GRN built around the mTOR gene is used to demonstrate the main capabilities of the toolkit. Conclusions: The extended model proposed in this paper opens new opportunities in the study of gene regulation. Several of the successful researches done with the support of BN to understand high-level characteristics of regulatory networks, can now be improved to better understand the role of post-transcriptional regulation for example as a network-wide noise-reduction or stabilization mechanism

Cognitive reactivity: cultural adaptation and psychometric testing of the Persian version of the Leiden Index of Depression Sensitivity Revised (LEIDS-R) in an Iranian sample

Cognitive reactivity (CR) to the experimental induction of sad mood has been found to predict relapse in recovered depressed patients. The Leiden Index of Depression Sensitivity Revised (LEIDS-R) is a self-report measure of CR. The aim of the present study was to establish the validity and reliability of the Persian version of the LEIDS-R. The participants were recovered depressed and non-depressed Iranian individuals (n = 833). The analyses included content validation, factor analysis, construct validity, and reliability testing. Preliminary construct validation analysis confirmed that factor analysis was appropriate for the Persian version of the LEIDS-R. Factor analysis displayed similar factor loadings to the original English version. The total internal consistency of the translated version, which was assessed using Cronbach’s alpha coefficient, was equal to 0.90. The test-retest reliability of the total score was equal to that of the test-retest conducted after a two-week interval at 0.94. Content validity, face validity, and construct validity, as well as reliability analysis were all found to be satisfactory for the Persian version of the LEIDS-R. The Persian version of the LEIDS-R appears to be valid and reliable for use in future studies, and has properties comparable to the original version and to that obtained in previous studies

Structural studies of thermally stable, combustion-resistant polymer composites

Composites of the industrially important polymer, poly(methyl methacrylate) (PMMA), were prepared by free-radical polymerization of MMA with varying amounts (1–30 wt. %) of sodium dioctylsulfosuccinate (Aerosol OT or AOT) surfactant added to the reaction mixture. The composites with AOT incorporated show enhanced resistance to thermal degradation compared to pure PMMA homopolymer, and micro-cone combustion calorimetry measurements also show that the composites are combustion-resistant. The physical properties of the polymers, particularly at low concentrations of surfactant, are not significantly modified by the incorporation of AOT, whereas the degradation is modified considerably for even the smallest concentration of AOT (1 wt. %). Structural analyses over very different lengthscales were performed. X-ray scattering was used to determine nm-scale structure, and scanning electron microscopy was used to determine μm-scale structure. Two self-assembled species were observed: large phase-separated regions of AOT using electron microscopy and regions of hexagonally packed rods of AOT using X-ray scattering. Therefore, the combustion resistance is observed whenever AOT self-assembles. These results demonstrate a promising method of physically incorporating a small organic molecule to obtain a highly thermally stable and combustion-resistant material without significantly changing the properties of the polymer

Global associations between air pollutants and Chronic Obstructive Pulmonary Disease (COPD) exacerbations: a systematic review

Background: COPD exacerbations (AECOPD) affect lung function decline and quality of life. The effect of exposure to different air pollutants on AECOPD is unclear. Aim: We systematically reviewed the literature examining associations between air pollutants and hospital admissions for AECOPD. Methods: MEDLINE, EMBASE, BIOSIS & Science Citation Index were searched until September 2015. Inclusion criteria focused on studies presenting solely a COPD outcome defined by hospital admissions, and a measure of gaseous air pollutants and particle fractions. The association between each pollutant with COPD admissions was investigated in meta-analyses using random-effects models. Analyses were stratified by geographical clusters to investigate the evidence worldwide. Results: 46 studies were included and results showed marginal positive associations. The number of included studies was small with high heterogeneity between them and there was evidence of small-study bias. Geographical clustering of the effects of pollution on COPD hospital admissions was evident and reduced heterogeneity significantly. The most consistent association was between a 1mg/m3 increase in carbon monoxide levels with COPD related admissions; Odds Ratio: 1.2 (95%CI: 1.01-1.03). Conclusions: There is mixed evidence on the effects of pollution on AECOPD. Limitations of previous studies include the low spatio-temporal resolution of pollutants, inadequate control for confounding factors, and the use of aggregated health data that ignore personal characteristics. The need for personal exposure monitoring in a large number of geographical locations is evident