A review of techniques for monitoring the success of peatland restoration

An important element of all peatland restorationprojects is a programme of monitoring to checkresults and progress. Several peat projectworkshops identified a demand for technicalguidance on monitoring techniques. So NaturalEngland commissioned this study to: -Review the range of peatland restorationmonitoring techniques available. -Identify those that were consistent, informativeand easily applicable for peatland restorationprojects at a range of scales and budgets.Tables to identify appropriate monitoringtechniques for specific projects are published inthe Technical Information Note TIN097 -Guidelines for monitoring peatland restoration.Further information on these techniques isprovided in this report.The findings of this study have been used to: -Inform the JNCC project to design a researchprogramme on UK Peatland Green House Gasand Carbon Flux. -Develop thinking on monitoring peatlands inthe IUCN UK Peatland Programme. -Inform hydrological monitoring programmes forthe Dartmoor and Exmoor Mires Project.These findings are being disseminated to: -Encourage the use of balanced and consistentapproaches to peatland restoration monitoring. -Develop consistency in monitoring approachesso as to enable possible future collation ofpeatland monitoring data as a single databaseresource.A single database resource of peatlandrestoration would enable more robust analysesof monitoring data to support the developmentand implementation of future support andmanagement techniques for peatlandrestoration

Guidelines for monitoring the success of peatland restoration

The aim of this guidance is to provide information to enable peatland restoration projects to develop appropriate monitoring programmes. Degraded peatlands are restored for a wide range of reasons. Restoration objectives can include protecting and enhancing biodiversity, improving water quality, reducing flood risk and protecting cultural heritage or carbon stores. Restoration projects need monitoring programmes to show whether these objectives are being met and to help them to adapt practices to respond to environmental changes

Loss of Wdfy3 in mice alters cerebral cortical neurogenesis reflecting aspects of the autism pathology.

Autism spectrum disorders (ASDs) are complex and heterogeneous developmental disabilities affecting an ever-increasing number of children worldwide. The diverse manifestations and complex, largely genetic aetiology of ASDs pose a major challenge to the identification of unifying neuropathological features. Here we describe the neurodevelopmental defects in mice that carry deleterious alleles of the Wdfy3 gene, recently recognized as causative in ASDs. Loss of Wdfy3 leads to a regionally enlarged cerebral cortex resembling early brain overgrowth described in many children on the autism spectrum. In addition, affected mouse mutants display migration defects of cortical projection neurons, a recognized cause of epilepsy, which is significantly comorbid with autism. Our analysis of affected mouse mutants defines an important role for Wdfy3 in regulating neural progenitor divisions and neural migration in the developing brain. Furthermore, Wdfy3 is essential for cerebral expansion and functional organization while its loss-of-function results in pathological changes characteristic of ASDs

Transcriptomic response to ISAV infection in the gills, head kidney and spleen of resistant and susceptible Atlantic salmon

Abstract Background Infectious Salmon Anaemia virus (ISAV) is an orthomyxovirus responsible for large losses in Atlantic salmon (Salmo salar) aquaculture. Current available treatments and vaccines are not fully effective, and therefore selective breeding to produce ISAV-resistant strains of Atlantic salmon is a high priority for the industry. Genomic selection and potentially genome editing can be applied to enhance the disease resistance of aquaculture stocks, and both approaches can benefit from increased knowledge on the genomic mechanisms of resistance to ISAV. To improve our understanding of the mechanisms underlying resistance to ISAV in Atlantic salmon we performed a transcriptomic study in ISAV-infected salmon with contrasting levels of resistance to this virus. Results Three different tissues (gills, head kidney and spleen) were collected on 12 resistant and 12 susceptible fish at three timepoints (pre-challenge, 7 and 14 days post challenge) and RNA sequenced. The transcriptomes of infected and non-infected fish and of resistant and susceptible fish were compared at each timepoint. The results show that the responses to ISAV are organ-specific; an important response to the infection was observed in the head kidney, with up-regulation of immune processes such as interferon and NLR pathways, while in gills and spleen the response was more moderate. In addition to immune related genes, our results suggest that other processes such as ubiquitination and ribosomal processing are important during early infection with ISAV. Moreover, the comparison between resistant and susceptible fish has also highlighted some interesting genes related to ubiquitination, intracellular transport and the inflammasome. Conclusions Atlantic salmon infection by ISAV revealed an organ-specific response, implying differential function during the infection. An immune response was observed in the head kidney in these early timepoints, while gills and spleen showed modest responses in comparison. Comparison between resistance and susceptible samples have highlighted genes of interest for further studies, for instance those related to ubiquitination or the inflammasome

Evaluation of the WMO Solid Precipitation Intercomparison Experiment (SPICE) transfer functions for adjusting the wind bias in solid precipitation measurements

The World Meteorological Organization (WMO) Solid Precipitation Intercomparison Experiment (SPICE) involved extensive field intercomparisons of automated instruments for measuring snow during the 2013/2014 and 2014/2015 winter seasons. A key outcome of SPICE was the development of transfer functions for the wind bias adjustment of solid precipitation measurements using various precipitation gauge and wind shield configurations. Due to the short intercomparison period, the data set was not sufficiently large to develop and evaluate transfer functions using independent precipitation measurements, although on average the adjustments were effective at reducing the bias in unshielded gauges from −33.4 % to 1.1 %. The present analysis uses data collected at eight SPICE sites over the 2015/2016 and 2016/2017 winter periods, comparing 30 min adjusted and unadjusted measurements from Geonor T-200B3 and OTT Pluvio2 precipitation gauges in different shield configurations to the WMO Double Fence Automated Reference (DFAR) for the evaluation of the transfer function. Performance is assessed in terms of relative total catch (RTC), root mean square error (RMSE), Pearson correlation (r), and percentage of events (PEs) within 0.1 mm of the DFAR. Metrics are reported for combined precipitation types and for snow only. The evaluation shows that the performance varies substantially by site. Adjusted RTC varies from 54 % to 123 %, RMSE from 0.07 to 0.38 mm, r from 0.28 to 0.94, and PEs from 37 % to 84 %, depending on precipitation phase, site, and gauge configuration (gauge and wind screen type). Generally, windier sites, such as Haukeliseter (Norway) and Bratt's Lake (Canada), exhibit a net under-adjustment (RTC of 54 % to 83 %), while the less windy sites, such as Sodankylä (Finland) and Caribou Creek (Canada), exhibit a net over-adjustment (RTC of 102 % to 123 %). Although the application of transfer functions is necessary to mitigate wind bias in solid precipitation measurements, especially at windy sites and for unshielded gauges, the variability in the performance metrics among sites suggests that the functions be applied with caution

Differential hRad17 expression by histologic subtype of ovarian cancer

<p>Abstract</p> <p>Background</p> <p>In the search for unique ovarian cancer biomarkers, ovarian specific cDNA microarray analysis identified hRad17, a cell cycle checkpoint protein, as over-expressed in ovarian cancer. The aim of this study was to validate this expression.</p> <p>Methods</p> <p>Immunohistochemistry was performed on 72 serous, 19 endometrioid, 10 clear cell, and 6 mucinous ovarian cancers, 9 benign ovarian tumors, and 6 normal ovarian tissue sections using an anti-hRad17 antibody. Western blot analysis and quantitative PCR were performed using cell lysates and total RNA prepared from 17 ovarian cancer cell lines and 6 normal ovarian epithelial cell cultures (HOSE).</p> <p>Results</p> <p>Antibody staining confirmed upregulation of hRad17 in 49.5% of ovarian cancer cases. Immunohistochemistry demonstrated that only 42% of serous and 47% of endometrioid subtypes showed overexpression compared to 80% of clear cell and 100% of mucinous cancers. Western blot confirmed overexpression of hRad17 in cancer cell lines compared to HOSE. Quantitative PCR demonstrated an upregulation of hRad17 RNA by 1.5-7 fold. hRad17 RNA expression differed by subtype.</p> <p>Conclusions</p> <p>hRad17 is over-expressed in ovarian cancer. This over-expression varies by subtype suggesting a role in the pathogenesis of these types. Functional studies are needed to determine the potential role of this protein in ovarian cancer.</p

Using virtual reality and thermal imagery to improve statistical modelling of vulnerable and protected species.

Biodiversity loss and sparse observational data mean that critical conservation decisions may be based on little to no information. Emerging technologies, such as airborne thermal imaging and virtual reality, may facilitate species monitoring and improve predictions of species distribution. Here we combined these two technologies to predict the distribution of koalas, specialized arboreal foliovores facing population declines in many parts of eastern Australia. For a study area in southeast Australia, we complemented ground-survey records with presence and absence observations from thermal-imagery obtained using Remotely-Piloted Aircraft Systems. These field observations were further complemented with information elicited from koala experts, who were immersed in 360-degree images of the study area. The experts were asked to state the probability of habitat suitability and koala presence at the sites they viewed and to assign each probability a confidence rating. We fit logistic regression models to the ground survey data and the ground plus thermal-imagery survey data and a Beta regression model to the expert elicitation data. We then combined parameter estimates from the expert-elicitation model with those from each of the survey models to predict koala presence and absence in the study area. The model that combined the ground, thermal-imagery and expert-elicitation data substantially reduced the uncertainty around parameter estimates and increased the accuracy of classifications (koala presence vs absence), relative to the model based on ground-survey data alone. Our findings suggest that data elicited from experts using virtual reality technology can be combined with data from other emerging technologies, such as airborne thermal-imagery, using traditional statistical models, to increase the information available for species distribution modelling and the conservation of vulnerable and protected species

Active DNA demethylation of developmental cis-regulatory regions predates vertebrate origins

DNA methylation [5-methylcytosine (5mC)] is a repressive gene-regulatory mark required for vertebrate embryogenesis. Genomic 5mC is tightly regulated through the action of DNA methyltransferases, which deposit 5mC, and ten-eleven translocation (TET) enzymes, which participate in its active removal through the formation of 5-hydroxymethylcytosine (5hmC). TET enzymes are essential for mammalian gastrulation and activation of vertebrate developmental enhancers; however, to date, a clear picture of 5hmC function, abundance, and genomic distribution in nonvertebrate lineages is lacking. By using base-resolution 5mC and 5hmC quantification during sea urchin and lancelet embryogenesis, we shed light on the roles of nonvertebrate 5hmC and TET enzymes. We find that these invertebrate deuterostomes use TET enzymes for targeted demethylation of regulatory regions associated with developmental genes and show that the complement of identified 5hmC-regulated genes is conserved to vertebrates. This work demonstrates that active 5mC removal from regulatory regions is a common feature of deuterostome embryogenesis suggestive of an unexpected deep conservation of a major gene-regulatory module