Genomic Organization of Zebrafish microRNAs

<p>Abstract</p> <p>Background</p> <p>microRNAs (miRNAs) are small (~22 nt) non-coding RNAs that regulate cell movement, specification, and development. Expression of miRNAs is highly regulated, both spatially and temporally. Based on direct cloning, sequence conservation, and predicted secondary structures, a large number of miRNAs have been identified in higher eukaryotic genomes but whether these RNAs are simply a subset of a much larger number of noncoding RNA families is unknown. This is especially true in zebrafish where genome sequencing and annotation is not yet complete.</p> <p>Results</p> <p>We analyzed the zebrafish genome to identify the number and location of proven and predicted miRNAs resulting in the identification of 35 new miRNAs. We then grouped all 415 zebrafish miRNAs into families based on seed sequence identity as a means to identify possible functional redundancy. Based on genomic location and expression analysis, we also identified those miRNAs that are likely to be encoded as part of polycistronic transcripts. Lastly, as a resource, we compiled existing zebrafish miRNA expression data and, where possible, listed all experimentally proven mRNA targets.</p> <p>Conclusion</p> <p>Current analysis indicates the zebrafish genome encodes 415 miRNAs which can be grouped into 44 families. The largest of these families (the miR-430 family) contains 72 members largely clustered in two main locations along chromosome 4. Thus far, most zebrafish miRNAs exhibit tissue specific patterns of expression.</p

Eyes wide shut? UK consumer perceptions on aviation climate impacts and travel decisions to New Zealand

The purview of climate change concern has implicated air travel, as evidenced in a growing body of academic literature concerned with aviation CO2 emissions. This article assesses the relevance of climate change to long haul air travel decisions to New Zealand for United Kingdom consumers. Based on 15 semi-structured open-ended interviews conducted in Bournemouth, UK during June 2009, it was found that participants were unlikely to forgo potential travel decisions to New Zealand because of concern over air travel emissions. Underpinning the interviewees’ understandings and responses to air travel’s climate impact was a spectrum of awareness and attitudes to air travel and climate change. This spectrum ranged from individuals who were unaware of air travel’s climate impact to those who were beginning to consume air travel with a ‘carbon conscience’. Within this spectrum were some who were aware of the impact but not willing to change their travel behaviours at all. Rather than implicating long haul air travel, the empirical evidence instead exemplifies changing perceptions towards frequent short haul air travel and voices calls for both government and media in the UK to deliver more concrete messages on air travel’s climate impact

Cardiff Urban Geo-Observatory : groundwater temperature data 2014-2018, metadata report

This report provides the metadata to accompany the first open source data release of groundwater temperature time series measurements from the ‘Cardiff Urban Geo-Observatory’ project. Groundwater temperatures were measured in 53 boreholes at a sampling frequency of 30 minutes between 2014 to 2018. The dataset comprises over 3.5 million temperature measurements. Boreholes are located within the urban area of the City of Cardiff, Wales, UK. The majority of temperature sensors were installed within boreholes that monitor a shallow (maximum ~30m thickness) Quaternary aged sand and gravel aquifer, which is the target aquifer for the Cardiff Urban Geo-Observatory project. Representative groundwater temperature data from the Made Ground and the Triassic Mercia Mudstone are also reported. We hope that by releasing this open-source data we can provide an evidence base to support the public, developers, planners, regulators, utility companies and policy makers that have an interest in the urban subsurface. We also hope to engage with other researchers and welcome collaborative research and innovation projects using this publically funded data. The open access data can be downloaded from: http://bgsintranet/resources/data/accessions/index.html?simpleText=ukgeos#item13016

An evidence-based theory of change for reducing SARS-CoV-2 transmission in reopened schools

Schools have closed worldwide as part of measures to prevent SARS-CoV-2 transmission but are beginning to reopen in some countries. Various measures are being pursued to minimise transmission but existing guidance has not developed a comprehensive framework or theory of change. We present a framework informed by the occupational health hierarchy of control and a theory of change informed by realist approaches. We present measures focused on elimination, substitution, engineering, administration, education and personal protective equipment. We theorise that such measures offer a means of disrupting SARS-CoV-2 transmission via routes involving fomites, faeco-oral routes, droplets and aerosols

Benchmarks and Standards for the Evaluation of Parallel Job Schedulers

The evaluation of parallel job schedulers hinges on the workloads used. It is suggested that this be standardized, in terms of both format and content, so as to ease the evaluation and comparison of different systems. The question remains whether this can encompass both traditional parallel systems and metacomputing systems. This paper is based on a panel on this subject that was held at the workshop, and the ensuing discussion; its authors are both the panel members and participants from the audience. Naturally, not all of us agree with all the opinions expressed here..

Herbicide-Resistance in Turf Systems: Insights and Options for Managing Complexity

Due to complex interactions between social and ecological systems, herbicide resistance has classic features of a “wicked problem.” Herbicide-resistant (HR) Poa annua poses a risk to sustainably managing U.S. turfgrass systems, but there is scant knowledge to guide its management. Six focus groups were conducted throughout the United States to gain understanding of socio-economic barriers to adopting herbicide-resistance management practices. Professionals from major turfgrass sectors (golf courses, sports fields, lawn care, and seed/sod production) were recruited as focus-group participants. Discussions emphasized challenges of the weed management of turfgrass systems as compared to agronomic crops. This included greater time constraints for managing weeds and more limited chemical control options. Lack of understanding about the proper use of compounds with different modes of action was identified as a threat to sustainable weed management. There were significant regional differences in perceptions of the existence, geographic scope, and social and ecological causes of HR in managing Poa annua. Effective resistance management will require tailoring chemical and non-chemical practices to the specific conditions of different turfgrass sectors and regions. Some participants thought it would be helpful to have multi-year resistance management programs that are both sector- and species-specific

A city scale 3D geological model to support ground source heat recovery and storage

The Cardiff Urban Geo Observatory was established to characterise, monitor and model groundwater and heat flow in a shallow urban aquifer. Mapping showed that shallow ground groundwater temperatures exceeded 150C, due to effects of the subsurface urban heat island (Farr et al, 2017). A 3D model of the superficial deposits was created to better understand the aquifer dimensions and as a framework for a hydrogeological heat flow model

Establishing an urban geo-observatory to support sustainable development of shallow subsurface heat recovery and storage

Low-enthalpy ground source heating and cooling is recognised as one strategy that can contribute towards reducing reliance on traditional, increasingly insecure, CO2-intense thermal power generation, as well as helping to address fuel poverty. Development of this technology is applicable in urban areas where high housing density often coincides with the presence of shallow aquifers. In urban areas groundwater temperatures can be elevated due to the subsurface Urban Heat Island effect. Uptake and development of this technology is often limited by initial investment costs, however, baseline temperature monitoring and characterisation of urban aquifers, conducted in partnership with local authorities, can provide a greater degree of certainty around resource and sustainability that can facilitate better planning, regulation and management of subsurface heat. We present a novel high-density, city-scale groundwater temperature observatory and introduce a 3D geological model aimed at addressing the needs of developers, planners, regulators and policy makers. The Cardiff Geo-Observatory measures temperature in a Quaternary aged sand and gravel aquifer in 61 boreholes and at a pilot shallow open-loop ground source heating system. We show that repurposing existing infrastructure can provide a cost effective method of developing monitoring networks, and make recommendations on establishing similar geo-observatories

Groundwater heat pump feasibility in shallow urban aquifers: experience from Cardiff, UK

Ground source heat pumps have the potential to decarbonise heating and cooling in many urban areas. The impact of using shallow groundwater from unconsolidated sedimentary aquifers for heating in urban areas is often modelled, but rarely validated from field measurements. This study presents findings from the ‘Cardiff Urban Geo-Observatory’ project. This study focuses on an experimental open loop ground source heat pump scheme retrofitted to a school building. Field monitoring for three years between 2015 and 2018 provided data on the environmental impact of the scheme on aquifer conditions. Average aquifer thermal degradation in the first three years was kept below 2 °C, with a maximum change of 4 °C measured during the heating season. The numerically modelled predictions of thermal degradation around the production and injection wells are compared with long-term field monitoring data, providing new insights into both aquifer, and user, behaviour. The Seasonal Performance Factor (SPFH4) of the pilot installation was 4.5 (W13/W50) in the monitoring period. An initial thermal resource estimation of the wider aquifer volume suggests that lowering the temperature of the aquifer by 8 °C could generate equivalent to 26% of the city's 2020 heating demand, but achievable heat extraction would in reality, be less. The study concludes that large parts of the aquifer can sustain shallow open loop ground source heat pump systems, as long as the local ground conditions support the required groundwater abstraction and re-injection rates. Future schemes can be de-risked and better managed by introduction of a registration of all GSHP schemes, with open sharing of investigation, design and performance monitoring data, and by managing thermal interference between systems using spatial planning tools