Linking Hydro-Geophysics and Remote Sensing Technology for Sustainable Water and Agricultural Catchment Management

PosterThe acquisition of sub-surface data for agricultural purposes is traditionally achieved by in situ point sampling in the top 2m over limited target areas (farm scale ~ km2) and time periods. This approach is inadequate for integrated regional (water catchment ~ 100 km2) scale management strategies which require an understanding of processes varying over decadal time scales in the transition zone (~ 10’s m) from surface to bedrock. With global food demand expected to increase by 100% by 2050, there are worldwide concerns that achievement of production targets will be at the expense of water quality. In order to overcome the limitations of the traditional approach, this research programme will combine airborne and ground geophysics with remote sensing technologies to access hydrogeological and soil structure information on Irish Soils at multiple spatial scales. It will address this problem in the context of providing tools for the sustainable management of agricultural intensification envisioned in Food Harvest 2020 and Food Wise 2025 and considering the EU Habitats and Water Framework Directives (WFD), Clean Air Policy and Soil Thematic Strategies. The work will use existing ground based geophysical and hydrogeological data from Teagasc Agricultural Catchment Programme (ACP) and Heavy Soil sites co-located ground and airborne electromagnetic data. Neural Networks training and Machine learning approaches will supplement traditional geophysical workflows. Work will then focus on upscaling results from ACP to WFD catchment scale. This upscaling will require modification of traditional satellite remote sensing conceptual frameworks to analyse heterogeneous, multi-temporal data streams

Climate drives the geography of marine consumption by changing predator communities

Este artículo contiene 7 páginas, 3 figuras, 1 tabla.The global distribution of primary production and consumption by humans (fisheries) is well-documented, but we have no map linking the central ecological process of consumption within food webs to temperature and other ecological drivers. Using standardized assays that span 105° of latitude on four continents, we show that rates of bait consumption by generalist predators in shallow marine ecosystems are tightly linked to both temperature and the composition of consumer assemblages. Unexpectedly, rates of consumption peaked at midlatitudes (25 to 35°) in both Northern and Southern Hemispheres across both seagrass and unvegetated sediment habitats. This pattern contrasts with terrestrial systems, where biotic interactions reportedly weaken away from the equator, but it parallels an emerging pattern of a subtropical peak in marine biodiversity. The higher consumption at midlatitudes was closely related to the type of consumers present, which explained rates of consumption better than consumer density, biomass, species diversity, or habitat. Indeed, the apparent effect of temperature on consumption was mostly driven by temperature-associated turnover in consumer community composition. Our findings reinforce the key influence of climate warming on altered species composition and highlight its implications for the functioning of Earth’s ecosystems.We acknowledge funding from the Smithsonian Institution and the Tula Foundation.Peer reviewe

Genetic mechanisms of critical illness in COVID-19.

Host-mediated lung inflammation is present1, and drives mortality2, in the critical illness caused by coronavirus disease 2019 (COVID-19). Host genetic variants associated with critical illness may identify mechanistic targets for therapeutic development3. Here we report the results of the GenOMICC (Genetics Of Mortality In Critical Care) genome-wide association study in 2,244 critically ill patients with COVID-19 from 208 UK intensive care units. We have identified and replicated the following new genome-wide significant associations: on chromosome 12q24.13 (rs10735079, P = 1.65 × 10-8) in a gene cluster that encodes antiviral restriction enzyme activators (OAS1, OAS2 and OAS3); on chromosome 19p13.2 (rs74956615, P = 2.3 × 10-8) near the gene that encodes tyrosine kinase 2 (TYK2); on chromosome 19p13.3 (rs2109069, P = 3.98 ×  10-12) within the gene that encodes dipeptidyl peptidase 9 (DPP9); and on chromosome 21q22.1 (rs2236757, P = 4.99 × 10-8) in the interferon receptor gene IFNAR2. We identified potential targets for repurposing of licensed medications: using Mendelian randomization, we found evidence that low expression of IFNAR2, or high expression of TYK2, are associated with life-threatening disease; and transcriptome-wide association in lung tissue revealed that high expression of the monocyte-macrophage chemotactic receptor CCR2 is associated with severe COVID-19. Our results identify robust genetic signals relating to key host antiviral defence mechanisms and mediators of inflammatory organ damage in COVID-19. Both mechanisms may be amenable to targeted treatment with existing drugs. However, large-scale randomized clinical trials will be essential before any change to clinical practice

Do CEC guidelines under-utilise the full potential of increasing kVp as a dose-reducing tool?

Increasing beam energies are well established as a radiation dose-reducing tool in diagnostic radiology. This has led to useful recommendations by the Commission of European Communities (CEC) for appropriate kVp values to be employed for a variety of examinations. The current work tests the hypothesis that kVp levels above those recommended by the CEC will result in reduced patient dose while still producing images of acceptable quality. This study explored the effect of a range of kVp levels within and above CEC recommendations for lumbar spine radiology. A phantom investigation facilitated selection of appropriate kVp levels for a patient study (n=59): 81 kVp (CEC) and 96 kVp (non-CEC) for the AP projection and 90 kVp (CEC) and 102 kVp (non-CEC) for the lateral projection. Entrance surface and effective dose were calculated and image quality quantified using CEC image criteria and images of a detail contrast test tool. Data analysis demonstrated significant reduction in effective radiation dose for AP (29.9%) and lateral (24.6%) when a kVp value above the CEC range was employed compared with a kVp recommended by the CEC. Although significant reductions in total image quality of 18.3 % and 10.1% for the antero-posterior and lateral projections, respectively, were noted, all patient images produced with all kVp values were considered acceptable by each member of the evaluative panel with all image criteria receiving a score of 2 (out of 3) or better. The psychophysical tests revealed minor non-significant reductions in visualisation scores. The current study demonstrated that kVp values outside the CEC recommended range offer reductions in dose while producing acceptable images. Practitioners should be guided, rather than constrained, by the CEC recommendations on good radiographic technique. The need for further work exploring the effect of higher energies on visualisation of subtle pathological lesions has been identified.Peer reviewe

Increasing film-focus distance (FFD) reduces radiation dose for x-ray examinations

Increasing film-focus distance (FFD) from the traditional 100 cm has been shown to be an effective method of reducing dose whilst maintaining image quality. In particular, previous work increasing the FFD from 100 to 130 cm for lumbar spine examinations demonstrated an effective dose reduction of 44%. Objective. The current study continues on from this work by investigating the dose-reducing efficacy of this FFD change for pelvis X-ray examinations. Materials and methods. Dose measurements at 100 and 130 cm using thermoluminescent dosemeters were undertaken using an anthropomorphic phantom and patients. Image quality was assessed using CEC anatomical criteria and psychophysical tests. Results. The results showed that increasing the FFD results in a reduction in effective dose of 33%, with no change in image quality. The data provided in this and previous studies demonstrate the need for rapid implementation of this simple cost-effective procedure across imaging departments, leading to an important reduction in collective dose. Conclusion. The CEC recommendation of using 115 cm FFD for a number of procedures, although useful compared with 100 cm, undervalues by a factor between 2 and 3 the potential of this dose-reducing tool.Peer reviewe

A Whole-Genome CRISPR Screen Identifies AHR Loss as a Mechanism of Resistance to a PARP7 Inhibitor.

Inhibitors directed toward PARP1 and PARP2 are approved agents for the treatment of BRCA1 and BRCA2-related cancers. Other members of the PARP family have also been implicated in cancer and are being assessed as therapeutic targets in cancer and other diseases. Recently, an inhibitor of PARP7 (RBN-2397) has reached early-stage human clinical trials. Here, we performed a genome-wide CRISPR screen for genes that modify the response of cells to RBN-2397. We identify the polycyclic aromatic hydrocarbon receptor AHR and multiple components of the cohesin complex as determinants of resistance to this agent. Activators and inhibitors of AHR modulate the cellular response to PARP7 inhibition, suggesting potential combination therapy approaches

γ-Glutamyl Transferase and Long-Term Survival in the SYNTAXES Trial:Is It Just the Liver?

BACKGROUND: Recently, machine learning algorithms have identified preprocedural γ-glutamyl transferase (GGT) as a significant predictor of long-term mortality after coronary revascularization in the SYNTAX (Synergy Between PCI [Percutaneous Coronary Intervention] With Taxus and Cardiac Surgery) trial. The aim of the present study is to investigate the impact of preprocedural GGT on 10-year all-cause mortality in patients with complex coronary artery disease after revascularization. METHODS AND RESULTS: The SYNTAX trial was a randomized trial comparing PCI with coronary artery bypass grafting in 1800 patients with complex coronary artery disease. The present report is a post hoc subanalysis of the SYNTAXES (Synergy Between PCI With Taxus and Cardiac Surgery Extended Survival) trial, an investigator-driven extended 10-year follow-up of the SYNTAX trial. The association between preprocedural GGT and 10-year all-cause mortality was investigated. The mean values of GGT for men and women were 43.5 (SD, 48.5) and 36.4 (SD, 46.1) U/L, respectively. In multivariable Cox regression models adjusted by traditional risk factors, GGT was an independent predictor for all-cause death at 10-year follow-up, and each SD increase in log-GGT was associated with a 1.24-fold risk of all cause death at 10-year follow-up (95% CI, 1.10-1.40). According to previously reported sex-related GGT thresholds, patients with higher GGT level had a 1.74-fold risk of all-cause death at 10-year follow-up (95% CI, 1.32-2.29) compared with patients with lower GGT level.CONCLUSIONS: Preprocedural GGT is an independent predictor of 10-year mortality after coronary revascularization in patients with complex coronary artery disease. In patients with elevated GGT, strong secondary prevention may be required after revascularization and must be studied prospectively. REGISTRATION: URL: https://clinicaltrials.gov/study/NCT03417050.</p

Mixotrophic and photoautotrophic cultivation of 14 microalgae isolates from Saskatchewan, Canada : potential applications for wastewater remediation for biofuel production

Northern regions are generally viewed as unsuitable for microalgal biofuel production due to unfavorable climate and solar insolation levels. However, these conditions can potentially be mitigated by coupling microalgal cultivation to industrial processes such as wastewater treatment. In this study, we have examined the biomass and lipid productivity characteristics of 14 microalgae isolates (Chlorophyta) from the Canadian province of Saskatchewan. Under both photoautotrophic and mixotrophic cultivation, a distinct linear trend was observed between biomass and lipid productivities in the 14 SK isolates. The most productive strain under cultivation in TAP media was Scenedesmus sp.-AMDD which displayed rates of biomass and fatty acid productivities of 80 and 30.7 mg L-1 day-1, respectively. The most productive strain in B3NV media was Chlamydomonas debaryana-AMLs1b which displayed rates of biomass and fatty acid productivities of 51.7 and 5.9 mg L-1 day-1, respectively. In 11 of the isolates tested, secondary municipal wastewater (MCWW) supported rates of biomass productivity between 21 and 33 mg L-1 day-1 with Scenedesmus sp.-AMDD being the most productive. Three strains, Chlamydomonas debaryana-AMB1, Chlorella sorokiniana-RBD8 and Micractinium sp.-RB1b, showed large increases in biomass productivity when cultivated mixotrophically in MCWW supplemented with glycerol. High relative oleic acid content was detected in 10 of the 14 isolates when grown mixotrophically in media supplemented with acetate. There was no detectable effect on the fatty acid profiles in cells cultivated mixotrophically in glycerol-supplemented MCWW. These data indicate that biomass and lipid productivities are boosted by mixotrophic cultivation. Exploiting this response in municipal wastewater is a promising strategy for the production of environmentally sustainable biofuels.Peer reviewed: YesNRC publication: Ye

Can Machine Learning Aid the Selection of Percutaneous vs Surgical Revascularization?

Background: In patients with 3-vessel coronary artery disease (CAD) and/or left main CAD, individual risk prediction plays a key role in deciding between percutaneous coronary intervention (PCI) and coronary artery bypass grafting (CABG). Objectives: The aim of this study was to assess whether these individualized revascularization decisions can be improved by applying machine learning (ML) algorithms and integrating clinical, biological, and anatomical factors. Methods: In the SYNTAX (Synergy between PCI with Taxus and Cardiac Surgery) study, ML algorithms (Lasso regression, gradient boosting) were used to develop a prognostic index for 5-year death, which was combined, in the second stage, with assigned treatment (PCI or CABG) and prespecified effect-modifiers: disease type (3-vessel or left main CAD) and anatomical SYNTAX score. The model's discriminative ability to predict the risk of 5-year death and treatment benefit between PCI and CABG was cross-validated in the SYNTAX trial (n = 1,800) and externally validated in the CREDO-Kyoto (Coronary REvascularization Demonstrating Outcome Study in Kyoto) registry (n = 7,362), and then compared with the original SYNTAX score II 2020 (SSII-2020). Results: The hybrid gradient boosting model performed best for predicting 5-year all-cause death with C-indexes of 0.78 (95% CI: 0.75-0.81) in cross-validation and 0.77 (95% CI: 0.76-0.79) in external validation. The ML models discriminated 5-year mortality better than the SSII-2020 in the external validation cohort and identified heterogeneity in the treatment benefit of CABG vs PCI. Conclusions: An ML-based approach for identifying individuals who benefit from CABG or PCI is feasible and effective. Implementation of this model in health care systems—trained to collect large numbers of parameters—may harmonize decision making globally.</p